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Conserved domains on  [gi|15240708|ref|NP_201531|]
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myb domain protein r1 [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 999994)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03091 super family cl33633
hypothetical protein; Provisional
 6-234 1.34e-29

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 117.00  E-value: 1.34e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708    6 KGPWSPEEDEQLRRLVVKYGPRNWTVISKSIP-GRSGKSCRLRWCNQLSPQVEHRPFSAEEDETIARAHAQFGNKWATIA 84
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708   85 RLLNGRTDNAVKNHWNSTLKRKcggYDHRGYDgSEDHRPVKRsvsagsppVVTGLYMSPGSPTGSD--VSDSSTIPILPS 162
Cdd:PLN03091  94 AQLPGRTDNEIKNLWNSCLKKK---LRQRGID-PNTHKPLSE--------VENGEDKNPPTDDKSDkaSSVVSNELNLLK 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708  163 VELFKPvprPGAVVLPLPIETSSSSDDPPTSLSlslPGADVSEESNRSHESTNINNTTSSRH---------NHNNTVSFM 233
Cdd:PLN03091 162 ADNSKP---LAALQEKRSSSISPAGYQLEVESS---SSSKINNSNNNNHSNSNLMTPTPNKDffldrfttsHESSTTSCR 235


                 .
gi 15240708  234 P 234
Cdd:PLN03091 236 P 236
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 6-234 1.34e-29

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 117.00  E-value: 1.34e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708    6 KGPWSPEEDEQLRRLVVKYGPRNWTVISKSIP-GRSGKSCRLRWCNQLSPQVEHRPFSAEEDETIARAHAQFGNKWATIA 84
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708   85 RLLNGRTDNAVKNHWNSTLKRKcggYDHRGYDgSEDHRPVKRsvsagsppVVTGLYMSPGSPTGSD--VSDSSTIPILPS 162
Cdd:PLN03091  94 AQLPGRTDNEIKNLWNSCLKKK---LRQRGID-PNTHKPLSE--------VENGEDKNPPTDDKSDkaSSVVSNELNLLK 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708  163 VELFKPvprPGAVVLPLPIETSSSSDDPPTSLSlslPGADVSEESNRSHESTNINNTTSSRH---------NHNNTVSFM 233
Cdd:PLN03091 162 ADNSKP---LAALQEKRSSSISPAGYQLEVESS---SSSKINNSNNNNHSNSNLMTPTPNKDffldrfttsHESSTTSCR 235


                 .
gi 15240708  234 P 234
Cdd:PLN03091 236 P 236
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 1-105 9.27e-24

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 100.63  E-value: 9.27e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708   1 MADRIKGPWSPEEDEQLRRLVVKYGPRNWTVISKSIPGRSGKSCRLRWCNQLSPQVEHRPFSAEEDETIARAHAQFGNKW 80
Cdd:COG5147  15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                        90       100
                ....*....|....*....|....*
gi 15240708  81 ATIARLLNGRTDNAVKNHWNSTLKR 105
Cdd:COG5147  95 STIADYKDRRTAQQCVERYVNTLED 119
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 9-67 4.30e-17

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 73.88  E-value: 4.30e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15240708     9 WSPEEDEQLRRLVVKYGpRNWTVISKSIPGRSGKSCRLRWCNQLSPQVEHRPFSAEEDE 67
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQ 58
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
6-54 5.18e-17

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 73.41  E-value: 5.18e-17
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15240708      6 KGPWSPEEDEQLRRLVVKYGPRNWTVISKSIPGRSGKSCRLRWCNQLSP 54
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 8-50 2.25e-16

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 71.45  E-value: 2.25e-16
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 15240708   8 PWSPEEDEQLRRLVVKYGPRNWTVISKSIPGRSGKSCRLRWCN 50
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 6-234 1.34e-29

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 117.00  E-value: 1.34e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708    6 KGPWSPEEDEQLRRLVVKYGPRNWTVISKSIP-GRSGKSCRLRWCNQLSPQVEHRPFSAEEDETIARAHAQFGNKWATIA 84
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708   85 RLLNGRTDNAVKNHWNSTLKRKcggYDHRGYDgSEDHRPVKRsvsagsppVVTGLYMSPGSPTGSD--VSDSSTIPILPS 162
Cdd:PLN03091  94 AQLPGRTDNEIKNLWNSCLKKK---LRQRGID-PNTHKPLSE--------VENGEDKNPPTDDKSDkaSSVVSNELNLLK 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708  163 VELFKPvprPGAVVLPLPIETSSSSDDPPTSLSlslPGADVSEESNRSHESTNINNTTSSRH---------NHNNTVSFM 233
Cdd:PLN03091 162 ADNSKP---LAALQEKRSSSISPAGYQLEVESS---SSSKINNSNNNNHSNSNLMTPTPNKDffldrfttsHESSTTSCR 235


                 .
gi 15240708  234 P 234
Cdd:PLN03091 236 P 236
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 6-157 1.10e-25

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 102.46  E-value: 1.10e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708    6 KGPWSPEEDEQLRRLVVKYGPRNWtvisKSIPGRSG-----KSCRLRWCNQLSPQVEHRPFSAEEDETIARAHAQFGNKW 80
Cdd:PLN03212  25 RGPWTVEEDEILVSFIKKEGEGRW----RSLPKRAGllrcgKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRW 100

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708   81 ATIARLLNGRTDNAVKNHWNSTLKRKC--GGYD---HRGYDGSEDHRPVKRsvsagsppvVTGLYMSPGSPTGSDVSDSS 155
Cdd:PLN03212 101 SLIAGRIPGRTDNEIKNYWNTHLRKKLlrQGIDpqtHKPLDANNIHKPEEE---------VSGGQKYPIEPISSSHTDDT 171


                 ..
gi 15240708  156 TI 157
Cdd:PLN03212 172 TV 173
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 1-105 9.27e-24

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 100.63  E-value: 9.27e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240708   1 MADRIKGPWSPEEDEQLRRLVVKYGPRNWTVISKSIPGRSGKSCRLRWCNQLSPQVEHRPFSAEEDETIARAHAQFGNKW 80
Cdd:COG5147  15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                        90       100
                ....*....|....*....|....*
gi 15240708  81 ATIARLLNGRTDNAVKNHWNSTLKR 105
Cdd:COG5147  95 STIADYKDRRTAQQCVERYVNTLED 119
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 9-67 4.30e-17

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 73.88  E-value: 4.30e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15240708     9 WSPEEDEQLRRLVVKYGpRNWTVISKSIPGRSGKSCRLRWCNQLSPQVEHRPFSAEEDE 67
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQ 58
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
6-54 5.18e-17

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 73.41  E-value: 5.18e-17
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15240708      6 KGPWSPEEDEQLRRLVVKYGPRNWTVISKSIPGRSGKSCRLRWCNQLSP 54
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 6-52 5.48e-17

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 73.31  E-value: 5.48e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15240708     6 KGPWSPEEDEQLRRLVVKYGpRNWTVISKSIPGRSGKSCRLRWCNQL 52
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 8-50 2.25e-16

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 71.45  E-value: 2.25e-16
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 15240708   8 PWSPEEDEQLRRLVVKYGPRNWTVISKSIPGRSGKSCRLRWCN 50
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 60-103 7.01e-16

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 70.23  E-value: 7.01e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 15240708    60 PFSAEEDETIARAHAQFGNKWATIARLLNGRTDNAVKNHWNSTL 103
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 60-103 2.00e-11

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 57.97  E-value: 2.00e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15240708  60 PFSAEEDETIARAHAQFG-NKWATIARLLNGRTDNAVKNHWNSTL 103
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
59-105 2.03e-11

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 58.00  E-value: 2.03e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 15240708     59 RPFSAEEDETIARAHAQFG-NKWATIARLLNGRTDNAVKNHWNSTLKR 105
Cdd:smart00717   2 GEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 61-107 2.08e-10

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 55.39  E-value: 2.08e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15240708    61 FSAEEDETIARAHAQFGNKWATIARLLNGRTDNAVKNHWNSTLKRKC 107
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKI 47
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 8-50 2.63e-06

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 43.71  E-value: 2.63e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15240708   8 PWSPEEDEQLRRLVVKYGPRNWTVI---SKSIPGRSGKSCRLRWCN 50
Cdd:cd11660   2 KWTDEEDEALVEGVEKYGVGNWAKIlkdYFFVNNRTSVDLKDKWRN 47
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 4-69 9.20e-04

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 40.54  E-value: 9.20e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15240708   4 RIKGPWSPEEDEQLRRLVVKYGPRnWTVISKSIpGRSGKSCRLRWCN--QLSPQVEHRPFSAEEDETI 69
Cdd:COG5147 289 EQRGKWTKEEEQELAKLVVEHGGS-WTEIGKLL-GRMPNDCRDRWRDyvKCGDTLKRNRWSIEEEELL 354
 
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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