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Conserved domains on  [gi|332006395|gb|AED93778|]
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Galactose oxidase/kelch repeat superfamily protein [Arabidopsis thaliana]

Protein Classification

F-box/kelch-repeat protein( domain architecture ID 17778853)

F-box/kelch-repeat protein may be a component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins

CATH:  1.20.1280.50|2.120.10.80
Gene Ontology:  GO:0006511|GO:0019005|GO:0005515|GO:0016567
PubMed:  10603472|31898225|11178263|31442578|24959344|10581972
SCOP:  4001927|3000448

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
 37-76 9.35e-15

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, 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 is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner 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: 438923  Cd Length: 45  Bit Score: 67.59  E-value: 9.35e-15
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 332006395  37 FLSLPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNEL 76
Cdd:cd22152    2 IPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPEL 41
NanM super family cl34543
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
176-297 7.74e-12

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


The actual alignment was detected with superfamily member COG3055:

Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 64.79  E-value: 7.74e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 176 WCNAPNMTVARAKAIGHAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPD-PGSELRFSSIRkidVFQEKLYVSS-- 252
Cdd:COG3055    3 WSSLPDLPTPRSEAAAALLDGKVYVAGGLSGGSASNSFEVYDPATNTWSELAPlPGPPRHHAAAV---AQDGKLYVFGgf 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 332006395 253 NEKIDS--------VYDPKEGKWNVAEKSPVQCMNLGCgmieiANYGGKLLIL 297
Cdd:COG3055   80 TGANPSstplndvyVYDPATNTWTKLAPMPTPRGGATA-----LLLDGKIYVV 127
 
Name Accession Description Interval E-value
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
 37-76 9.35e-15

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, 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 is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner 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: 438923  Cd Length: 45  Bit Score: 67.59  E-value: 9.35e-15
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 332006395  37 FLSLPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNEL 76
Cdd:cd22152    2 IPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPEL 41
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
176-297 7.74e-12

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 64.79  E-value: 7.74e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 176 WCNAPNMTVARAKAIGHAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPD-PGSELRFSSIRkidVFQEKLYVSS-- 252
Cdd:COG3055    3 WSSLPDLPTPRSEAAAALLDGKVYVAGGLSGGSASNSFEVYDPATNTWSELAPlPGPPRHHAAAV---AQDGKLYVFGgf 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 332006395 253 NEKIDS--------VYDPKEGKWNVAEKSPVQCMNLGCgmieiANYGGKLLIL 297
Cdd:COG3055   80 TGANPSstplndvyVYDPATNTWTKLAPMPTPRGGATA-----LLLDGKIYVV 127
Kelch_1 pfam01344
Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six ...
 192-230 1.77e-09

Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six copies of the motif. It has been shown that Swiss:Q04652 is related to Galactose Oxidase for which a structure has been solved. The kelch motif forms a beta sheet. Several of these sheets associate to form a beta propeller structure as found in pfam00064, pfam00400 and pfam00415.


Pssm-ID: 396078 [Multi-domain]  Cd Length: 46  Bit Score: 52.61  E-value: 1.77e-09
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 332006395  192 HAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPDPG 230
Cdd:pfam01344   8 VVVGGKIYVIGGFDGNQSLNSVEVYDPETNTWSKLPSMP 46
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 37-78 3.54e-06

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: 43.30  E-value: 3.54e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 332006395   37 FLSLPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNELTV 78
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWK 42
FBOX smart00256
A Receptor for Ubiquitination Targets;
40-76 1.73e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 38.57  E-value: 1.73e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 332006395    40 LPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNEL 76
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
Kelch smart00612
Kelch domain;
197-228 2.08e-04

Kelch domain;


Pssm-ID: 128874 [Multi-domain]  Cd Length: 47  Bit Score: 38.31  E-value: 2.08e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 332006395   197 KLYVMGGCRDDESVNWGEVFDPKTQTWEALPD 228
Cdd:smart00612   1 KIYVVGGFDGGQRLKSVEVYDPETNKWTPLPS 32
PHA03098 PHA03098
kelch-like protein; Provisional
 113-297 2.91e-04

kelch-like protein; Provisional


Pssm-ID: 222983 [Multi-domain]  Cd Length: 534  Bit Score: 42.45  E-value: 2.91e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 113 QILTNQLEKNERSTGATRlvQIPSSYCSIVPH---YLISvgsevyGLSQHNDPSSNMFVRNKEDLFWCNAPNMTVARAKA 189
Cdd:PHA03098 265 NYITNYSPLSEINTIIDI--HYVYCFGSVVLNnviYFIG------GMNKNNLSVNSVVSYDTKTKSWNKVPELIYPRKNP 336

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 190 IGHAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPdPGSELRFSSIrkIDVFQEKLYV-------SSNEKIDSVYDP 262
Cdd:PHA03098 337 GVTVFNNRIYVIGGIYNSISLNTVESWKPGESKWREEP-PLIFPRYNPC--VVNVNNLIYViggisknDELLKTVECFSL 413

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 332006395 263 KEGKWNVAEKSPVQCMNlGCgmieIANYGGKLLIL 297
Cdd:PHA03098 414 NTNKWSKGSPLPISHYG-GC----AIYHDGKIYVI 443
 
Name Accession Description Interval E-value
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
 37-76 9.35e-15

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, 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 is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner 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: 438923  Cd Length: 45  Bit Score: 67.59  E-value: 9.35e-15
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 332006395  37 FLSLPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNEL 76
Cdd:cd22152    2 IPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPEL 41
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
176-297 7.74e-12

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 64.79  E-value: 7.74e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 176 WCNAPNMTVARAKAIGHAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPD-PGSELRFSSIRkidVFQEKLYVSS-- 252
Cdd:COG3055    3 WSSLPDLPTPRSEAAAALLDGKVYVAGGLSGGSASNSFEVYDPATNTWSELAPlPGPPRHHAAAV---AQDGKLYVFGgf 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 332006395 253 NEKIDS--------VYDPKEGKWNVAEKSPVQCMNLGCgmieiANYGGKLLIL 297
Cdd:COG3055   80 TGANPSstplndvyVYDPATNTWTKLAPMPTPRGGATA-----LLLDGKIYVV 127
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
161-228 3.99e-10

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 59.78  E-value: 3.99e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332006395 161 DPSSNmfvrnkedlFWCNAPNMTVARAKAIGHAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPD 228
Cdd:COG3055   96 DPATN---------TWTKLAPMPTPRGGATALLLDGKIYVVGGWDDGGNVAWVEVYDPATGTWTQLAP 154
Kelch_1 pfam01344
Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six ...
 192-230 1.77e-09

Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six copies of the motif. It has been shown that Swiss:Q04652 is related to Galactose Oxidase for which a structure has been solved. The kelch motif forms a beta sheet. Several of these sheets associate to form a beta propeller structure as found in pfam00064, pfam00400 and pfam00415.


Pssm-ID: 396078 [Multi-domain]  Cd Length: 46  Bit Score: 52.61  E-value: 1.77e-09
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 332006395  192 HAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPDPG 230
Cdd:pfam01344   8 VVVGGKIYVIGGFDGNQSLNSVEVYDPETNTWSKLPSMP 46
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
153-296 8.89e-09

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 55.93  E-value: 8.89e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 153 VYGLSQHNDPSSNMFVRNKEDLFWCNAPNM-TVARAKAIGHAYNGKLYVMGGCRDDESVNW----GEVFDPKTQTWEALP 227
Cdd:COG3055   27 VAGGLSGGSASNSFEVYDPATNTWSELAPLpGPPRHHAAAVAQDGKLYVFGGFTGANPSSTplndVYVYDPATNTWTKLA 106

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 332006395 228 dPGSELRFSSIRKidVFQEKLYV------SSNEKIDSVYDPKEGKWNVAEKSPVQCMNLGCGMIeianYGGKLLI 296
Cdd:COG3055  107 -PMPTPRGGATAL--LLDGKIYVvggwddGGNVAWVEVYDPATGTWTQLAPLPTPRDHLAAAVL----PDGKILV 174
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 37-78 3.54e-06

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: 43.30  E-value: 3.54e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 332006395   37 FLSLPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNELTV 78
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWK 42
Kelch_6 pfam13964
Kelch motif;
193-229 2.19e-05

Kelch motif;


Pssm-ID: 404790 [Multi-domain]  Cd Length: 50  Bit Score: 41.17  E-value: 2.19e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 332006395  193 AYNGKLYVMGG-CRDDESVNWGEVFDPKTQTWEALPDP 229
Cdd:pfam13964   9 SVGGYIYVFGGyTNASPALNKLEVYNPLTKSWEELPPL 46
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
176-228 1.54e-04

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 42.84  E-value: 1.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 332006395 176 WCNAPNMTVARAKAIGHAYNGKLYVMGGcrddeSVNW---GEVFDPKTQTWEALPD 228
Cdd:COG3055  187 WTTLAPLPTARAGHAAAVLGGKILVFGG-----ESGFsdeVEAYDPATNTWTALGE 237
FBOX smart00256
A Receptor for Ubiquitination Targets;
40-76 1.73e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 38.57  E-value: 1.73e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 332006395    40 LPDEIVLNCLARISRSYYPKLSLVCKTFRTLLISNEL 76
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
Kelch smart00612
Kelch domain;
197-228 2.08e-04

Kelch domain;


Pssm-ID: 128874 [Multi-domain]  Cd Length: 47  Bit Score: 38.31  E-value: 2.08e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 332006395   197 KLYVMGGCRDDESVNWGEVFDPKTQTWEALPD 228
Cdd:smart00612   1 KIYVVGGFDGGQRLKSVEVYDPETNKWTPLPS 32
PHA03098 PHA03098
kelch-like protein; Provisional
 113-297 2.91e-04

kelch-like protein; Provisional


Pssm-ID: 222983 [Multi-domain]  Cd Length: 534  Bit Score: 42.45  E-value: 2.91e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 113 QILTNQLEKNERSTGATRlvQIPSSYCSIVPH---YLISvgsevyGLSQHNDPSSNMFVRNKEDLFWCNAPNMTVARAKA 189
Cdd:PHA03098 265 NYITNYSPLSEINTIIDI--HYVYCFGSVVLNnviYFIG------GMNKNNLSVNSVVSYDTKTKSWNKVPELIYPRKNP 336

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 190 IGHAYNGKLYVMGGCRDDESVNWGEVFDPKTQTWEALPdPGSELRFSSIrkIDVFQEKLYV-------SSNEKIDSVYDP 262
Cdd:PHA03098 337 GVTVFNNRIYVIGGIYNSISLNTVESWKPGESKWREEP-PLIFPRYNPC--VVNVNNLIYViggisknDELLKTVECFSL 413

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 332006395 263 KEGKWNVAEKSPVQCMNlGCgmieIANYGGKLLIL 297
Cdd:PHA03098 414 NTNKWSKGSPLPISHYG-GC----AIYHDGKIYVI 443
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
176-297 1.82e-03

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 39.75  E-value: 1.82e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332006395 176 WCNAPNMTVARAKAIGH-AYNGKLYVMGGCRDDESVNwgevfdpktqTWEALPDPGSELRFSSIRKIDvfqEKLYVSSNE 254
Cdd:COG3055  149 WTQLAPLPTPRDHLAAAvLPDGKILVIGGRNGSGFSN----------TWTTLAPLPTARAGHAAAVLG---GKILVFGGE 215

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 332006395 255 K--IDSV--YDPKEGKWNVAEKSPVQCMNLGCgmieiANYGGKLLIL 297
Cdd:COG3055  216 SgfSDEVeaYDPATNTWTALGELPTPRHGHAA-----VLTDGKVYVI 257
F-box_ScMDM30-like cd22143
F-box domain found in Saccharomyces cerevisiae mitochondrial distribution and morphology ...
 36-73 2.96e-03

F-box domain found in Saccharomyces cerevisiae mitochondrial distribution and morphology protein 30 (ScMDM30) and similar proteins; ScMDM30 is an F-box protein required for maintenance of fusion-competent mitochondria in yeast. It 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. ScMDM30 recognizes FZO1 and regulates the amount of FZO1. It acts as a regulatory factor for the mitochondrial fusion machinery and is required for mitochondrial DNA maintenance. 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: 438915  Cd Length: 44  Bit Score: 35.28  E-value: 2.96e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 332006395  36 TFLSLPDEIVLNCLARISRSYYPKLSLVCKTFRTLLIS 73
Cdd:cd22143    1 AFDSLPDEILSIIFSHLPQSDLYNLLFVNKHFYSLALP 38
 
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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