NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15226633|ref|NP_182281|]
View 

photolyase/blue-light receptor 2 [Arabidopsis thaliana]

Protein Classification

cryptochrome/deoxyribodipyrimidine photo-lyase family protein( domain architecture ID 1000267)

cryptochrome/deoxyribodipyrimidine photo-lyase family (CPF) protein is a flavoprotein that may be involved in DNA repair, circadian photoreception, and transcriptional regulation

Gene Ontology:  GO:0050660
PubMed:  32087057|28720252
SCOP:  3001644|4001154

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
PRK10674 super family cl30787
deoxyribodipyrimidine photolyase; Provisional
120-427 1.07e-88

deoxyribodipyrimidine photolyase; Provisional


The actual alignment was detected with superfamily member TIGR02765:

Pssm-ID: 453097 [Multi-domain]  Cd Length: 429  Bit Score: 276.56  E-value: 1.07e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKSS-SGFDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPE 198
Cdd:TIGR02765   6 WFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHfFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRSGKPE 85
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   199 AVLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQ-KLE 277
Cdd:TIGR02765  86 DVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQVEaKCS 165
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   278 IRKTIAALDQLKSLPSrgDVELGDIPSLLDLGIsptprTSQEGKPTM--VGGETEALTRLKSFAADcqarLSKGNQKGGN 355
Cdd:TIGR02765 166 IRPPLPAPEKLPPLPS--VDDPGWIPTLEDLGE-----ESSEVDRGLpfVGGETAGLARLKEYFWS----KDLKSYKETR 234
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15226633   356 NSVFGANFSCKISPWLAMGSISPRSMFDELKKTISASTTsttprngpgDTGLNWLMYELLWRDFFRFITKKY 427
Cdd:TIGR02765 235 NGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGA---------NDSTYWVIFELLWRDYFRFYALKY 297
 
Name Accession Description Interval E-value
crypto_DASH TIGR02765
cryptochrome, DASH family; Photolyases and cryptochromes are related flavoproteins. ...
120-427 1.07e-88

cryptochrome, DASH family; Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes. [Cellular processes, Adaptations to atypical conditions]


Pssm-ID: 274288 [Multi-domain]  Cd Length: 429  Bit Score: 276.56  E-value: 1.07e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKSS-SGFDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPE 198
Cdd:TIGR02765   6 WFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHfFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRSGKPE 85
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   199 AVLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQ-KLE 277
Cdd:TIGR02765  86 DVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQVEaKCS 165
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   278 IRKTIAALDQLKSLPSrgDVELGDIPSLLDLGIsptprTSQEGKPTM--VGGETEALTRLKSFAADcqarLSKGNQKGGN 355
Cdd:TIGR02765 166 IRPPLPAPEKLPPLPS--VDDPGWIPTLEDLGE-----ESSEVDRGLpfVGGETAGLARLKEYFWS----KDLKSYKETR 234
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15226633   356 NSVFGANFSCKISPWLAMGSISPRSMFDELKKTISASTTsttprngpgDTGLNWLMYELLWRDFFRFITKKY 427
Cdd:TIGR02765 235 NGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGA---------NDSTYWVIFELLWRDYFRFYALKY 297
PhrB COG0415
Deoxyribodipyrimidine photolyase [Replication, recombination and repair];
120-423 2.49e-69

Deoxyribodipyrimidine photolyase [Replication, recombination and repair];


Pssm-ID: 440184 [Multi-domain]  Cd Length: 466  Bit Score: 227.32  E-value: 2.49e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633 120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKsssgfDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPEA 199
Cdd:COG0415   7 WFRRDLRLHDNPALAAAAESGDPVIPVFILDPEQLGP-----HPLGAARRWFLHESLAALDASLRELGSRLIVRRGDPEE 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633 200 VLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQKLEIR 279
Cdd:COG0415  82 VLPALARELGADAVYWNRDYEPYERARDAAVKAALREAGIEVHSFNDHLLFEPGEVLTGSGTPYKVFTPFWKAWLKRLKR 161
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633 280 KTIAALDQLKSLPSRGDVElgdipSLLDLGISPTPRTSqegkPTMVGGETEALTRLKSFAADCQARLSKG-NqkggnnsV 358
Cdd:COG0415 162 APLPAPSALPALPIPPESD-----TLADLGLLPTDGLA----LLWPPGEAAALERLEDFLDDRLADYDETrD-------F 225
                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15226633 359 FGANFSCKISPWLAMGSISPRSMFDELKKTisasttsttpRNGPGDTGLNWLMYELLWRDFFRFI 423
Cdd:COG0415 226 PALDGTSRLSPHLAFGEISPRQVWHAALAA----------LEEEGGEGAETFLSELAWREFYYHL 280
DNA_photolyase pfam00875
DNA photolyase; This domain binds a light harvesting cofactor.
120-275 2.46e-50

DNA photolyase; This domain binds a light harvesting cofactor.


Pssm-ID: 459974 [Multi-domain]  Cd Length: 161  Bit Score: 168.16  E-value: 2.46e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRdygksssgFDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPEA 199
Cdd:pfam00875   4 WFRRDLRLHDNPALAAAAASGAPLIPVFILDPA--------FHDLGAARRWFLLESLADLDEELRERGIRLVVRRGDPAD 75
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15226633   200 VLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQK 275
Cdd:pfam00875  76 VLPELAKELGASAVFANRDYEPYERRRDAAVAEALREAGVEVHSFDGHTLVPPGEVRTKKGKPYRVFTPFWKAWLA 151
PRK10674 PRK10674
deoxyribodipyrimidine photolyase; Provisional
120-421 1.94e-09

deoxyribodipyrimidine photolyase; Provisional


Pssm-ID: 236734 [Multi-domain]  Cd Length: 472  Bit Score: 59.26  E-value: 1.94e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  120 WFRNDLRVHDNECLNSA-NDECVSVLPVYCFDPRDYGKSSsgfdkTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPE 198
Cdd:PRK10674   7 WFRNDLRLHDNLALAAAcRDPSARVLALFIATPAQWAAHD-----MAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDF 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  199 AVLVELAKeigadAVYAHREVSH---------DEVKAEGKIETAMkeEGVEVKYFWGSTL-------------YHLDDlP 256
Cdd:PRK10674  82 AASVEWLK-----QFCQQHQVTHlfynyqyevNERQRDAAVERAL--RNVVCQGFDDSVLlppgsvmtgnhemYKVFT-P 153
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  257 FK-------IEDLPSNYGAFKDKVQKLEIRKTIAALDqlksLPsRGDVELGDIPSlldlgisptprtsqegkptmvgGET 329
Cdd:PRK10674 154 FKnaflkrlREGDPECVPAPKVRSSGAIEPLPPIPFN----YP-QQSFDTALFPV----------------------GEK 206
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  330 EALTRLKSFaadCQARLSKGNQKGGNNSVFGANfscKISPWLAMGSISPRSMFDELKKTIsasttsttPR---NGPGDTG 406
Cdd:PRK10674 207 AAIAQLRQF---CQQGAGEYEQQRDFPAVDGTS---RLSAYLATGVLSPRQCLHRLLAEQ--------PQaldGGAGSVW 272
                        330
                 ....*....|....*
gi 15226633  407 LNwlmyELLWRDFFR 421
Cdd:PRK10674 273 LN----ELIWREFYR 283
 
Name Accession Description Interval E-value
crypto_DASH TIGR02765
cryptochrome, DASH family; Photolyases and cryptochromes are related flavoproteins. ...
120-427 1.07e-88

cryptochrome, DASH family; Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes. [Cellular processes, Adaptations to atypical conditions]


Pssm-ID: 274288 [Multi-domain]  Cd Length: 429  Bit Score: 276.56  E-value: 1.07e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKSS-SGFDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPE 198
Cdd:TIGR02765   6 WFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHfFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRSGKPE 85
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   199 AVLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQ-KLE 277
Cdd:TIGR02765  86 DVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQVEaKCS 165
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   278 IRKTIAALDQLKSLPSrgDVELGDIPSLLDLGIsptprTSQEGKPTM--VGGETEALTRLKSFAADcqarLSKGNQKGGN 355
Cdd:TIGR02765 166 IRPPLPAPEKLPPLPS--VDDPGWIPTLEDLGE-----ESSEVDRGLpfVGGETAGLARLKEYFWS----KDLKSYKETR 234
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15226633   356 NSVFGANFSCKISPWLAMGSISPRSMFDELKKTISASTTsttprngpgDTGLNWLMYELLWRDFFRFITKKY 427
Cdd:TIGR02765 235 NGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGA---------NDSTYWVIFELLWRDYFRFYALKY 297
PhrB COG0415
Deoxyribodipyrimidine photolyase [Replication, recombination and repair];
120-423 2.49e-69

Deoxyribodipyrimidine photolyase [Replication, recombination and repair];


Pssm-ID: 440184 [Multi-domain]  Cd Length: 466  Bit Score: 227.32  E-value: 2.49e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633 120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKsssgfDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPEA 199
Cdd:COG0415   7 WFRRDLRLHDNPALAAAAESGDPVIPVFILDPEQLGP-----HPLGAARRWFLHESLAALDASLRELGSRLIVRRGDPEE 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633 200 VLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQKLEIR 279
Cdd:COG0415  82 VLPALARELGADAVYWNRDYEPYERARDAAVKAALREAGIEVHSFNDHLLFEPGEVLTGSGTPYKVFTPFWKAWLKRLKR 161
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633 280 KTIAALDQLKSLPSRGDVElgdipSLLDLGISPTPRTSqegkPTMVGGETEALTRLKSFAADCQARLSKG-NqkggnnsV 358
Cdd:COG0415 162 APLPAPSALPALPIPPESD-----TLADLGLLPTDGLA----LLWPPGEAAALERLEDFLDDRLADYDETrD-------F 225
                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15226633 359 FGANFSCKISPWLAMGSISPRSMFDELKKTisasttsttpRNGPGDTGLNWLMYELLWRDFFRFI 423
Cdd:COG0415 226 PALDGTSRLSPHLAFGEISPRQVWHAALAA----------LEEEGGEGAETFLSELAWREFYYHL 280
DNA_photolyase pfam00875
DNA photolyase; This domain binds a light harvesting cofactor.
120-275 2.46e-50

DNA photolyase; This domain binds a light harvesting cofactor.


Pssm-ID: 459974 [Multi-domain]  Cd Length: 161  Bit Score: 168.16  E-value: 2.46e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   120 WFRNDLRVHDNECLNSANDECVSVLPVYCFDPRdygksssgFDKTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPEA 199
Cdd:pfam00875   4 WFRRDLRLHDNPALAAAAASGAPLIPVFILDPA--------FHDLGAARRWFLLESLADLDEELRERGIRLVVRRGDPAD 75
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15226633   200 VLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQK 275
Cdd:pfam00875  76 VLPELAKELGASAVFANRDYEPYERRRDAAVAEALREAGVEVHSFDGHTLVPPGEVRTKKGKPYRVFTPFWKAWLA 151
PRK10674 PRK10674
deoxyribodipyrimidine photolyase; Provisional
120-421 1.94e-09

deoxyribodipyrimidine photolyase; Provisional


Pssm-ID: 236734 [Multi-domain]  Cd Length: 472  Bit Score: 59.26  E-value: 1.94e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  120 WFRNDLRVHDNECLNSA-NDECVSVLPVYCFDPRDYGKSSsgfdkTGPFRAQFLIESVSELRKNLQARGSNLVVRVGKPE 198
Cdd:PRK10674   7 WFRNDLRLHDNLALAAAcRDPSARVLALFIATPAQWAAHD-----MAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDF 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  199 AVLVELAKeigadAVYAHREVSH---------DEVKAEGKIETAMkeEGVEVKYFWGSTL-------------YHLDDlP 256
Cdd:PRK10674  82 AASVEWLK-----QFCQQHQVTHlfynyqyevNERQRDAAVERAL--RNVVCQGFDDSVLlppgsvmtgnhemYKVFT-P 153
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  257 FK-------IEDLPSNYGAFKDKVQKLEIRKTIAALDqlksLPsRGDVELGDIPSlldlgisptprtsqegkptmvgGET 329
Cdd:PRK10674 154 FKnaflkrlREGDPECVPAPKVRSSGAIEPLPPIPFN----YP-QQSFDTALFPV----------------------GEK 206
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633  330 EALTRLKSFaadCQARLSKGNQKGGNNSVFGANfscKISPWLAMGSISPRSMFDELKKTIsasttsttPR---NGPGDTG 406
Cdd:PRK10674 207 AAIAQLRQF---CQQGAGEYEQQRDFPAVDGTS---RLSAYLATGVLSPRQCLHRLLAEQ--------PQaldGGAGSVW 272
                        330
                 ....*....|....*
gi 15226633  407 LNwlmyELLWRDFFR 421
Cdd:PRK10674 273 LN----ELIWREFYR 283
crypt_chrom_pln TIGR02766
cryptochrome, plant family; At least five major families of cryptochomes and photolyases share ...
120-261 1.18e-06

cryptochrome, plant family; At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.


Pssm-ID: 131813 [Multi-domain]  Cd Length: 475  Bit Score: 50.63  E-value: 1.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226633   120 WFRNDLRVHDNECLNSANDECvSVLPVYCFDPRDYGKSSSGfdktgpfRAQ--FLIESVSELRKNLQARGSNLV-VRVGK 196
Cdd:TIGR02766   3 WFRRDLRVEDNPALAAAARAG-PVIPVFVWAPEEEGQYYPG-------RVSrwWLKQSLAHLDQSLRSLGTCLVtIRSTD 74
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15226633   197 PEAVLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMKEEGVEVKYFWGSTLYHlddlPFKIED 261
Cdd:TIGR02766  75 TVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGISVQSFNADLLYE----PWEVYD 135
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH