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Conserved domains on  [gi|297827599|ref|XP_002881682|]
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transcription factor MYB25 isoform X1 [Arabidopsis lyrata subsp. lyrata]

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
 53-153 5.83e-31

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 122.78  E-value: 5.83e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  53 KGSWSPEQDEALTRLVKKCGPRNWTLMSR--GIPgRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAVLGNKWAVI 130
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKqaGLQ-RCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100
                 ....*....|....*....|...
gi 297827599 131 AKLLPGRTDNAIKNHWNSSLRRK 153
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCLKKK 115
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 53-153 5.83e-31

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 122.78  E-value: 5.83e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  53 KGSWSPEQDEALTRLVKKCGPRNWTLMSR--GIPgRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAVLGNKWAVI 130
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKqaGLQ-RCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100
                 ....*....|....*....|...
gi 297827599 131 AKLLPGRTDNAIKNHWNSSLRRK 153
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCLKKK 115
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 48-209 5.94e-21

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: 94.08  E-value: 5.94e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  48 GKSKVKGSWSPEQDEALTRLVKKCGPRNWTLMSRGIPGRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAVLGNKW 127
Cdd:COG5147   15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599 128 AVIAKLLPGRTDNAIKNHWNSSLRRKPADLWKVPLLmsyteeiyqmhPSKVRKISNASTKEEHLPREETDLVTPPVLNDE 207
Cdd:COG5147   95 STIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQR-----------RNEFDKIDPFNENSARRPDIYEDELLEREVNRE 163


                 ..
gi 297827599 208 AN 209
Cdd:COG5147  164 AS 165
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 56-116 9.53e-15

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: 68.11  E-value: 9.53e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 297827599   56 WSPEQDEALTRLVKKCGpRNWTLMSRGIPGRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMI 116
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
53-101 1.87e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 64.17  E-value: 1.87e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 297827599    53 KGSWSPEQDEALTRLVKKCGPRNWTLMSRGIPGRSGKSCRLRWCNQLDP 101
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 55-97 9.06e-13

'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: 62.21  E-value: 9.06e-13
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 297827599  55 SWSPEQDEALTRLVKKCGPRNWTLMSRGIPGRSGKSCRLRWCN 97
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 53-153 5.83e-31

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 122.78  E-value: 5.83e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  53 KGSWSPEQDEALTRLVKKCGPRNWTLMSR--GIPgRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAVLGNKWAVI 130
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKqaGLQ-RCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100
                 ....*....|....*....|...
gi 297827599 131 AKLLPGRTDNAIKNHWNSSLRRK 153
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCLKKK 115
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 53-153 4.93e-27

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 107.86  E-value: 4.93e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  53 KGSWSPEQDEALTRLVKKCGPRNW-TLMSRGIPGRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAVLGNKWAVIA 131
Cdd:PLN03212  25 RGPWTVEEDEILVSFIKKEGEGRWrSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIA 104

                         90       100
                 ....*....|....*....|..
gi 297827599 132 KLLPGRTDNAIKNHWNSSLRRK 153
Cdd:PLN03212 105 GRIPGRTDNEIKNYWNTHLRKK 126
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 48-209 5.94e-21

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: 94.08  E-value: 5.94e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  48 GKSKVKGSWSPEQDEALTRLVKKCGPRNWTLMSRGIPGRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAVLGNKW 127
Cdd:COG5147   15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599 128 AVIAKLLPGRTDNAIKNHWNSSLRRKPADLWKVPLLmsyteeiyqmhPSKVRKISNASTKEEHLPREETDLVTPPVLNDE 207
Cdd:COG5147   95 STIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQR-----------RNEFDKIDPFNENSARRPDIYEDELLEREVNRE 163


                 ..
gi 297827599 208 AN 209
Cdd:COG5147  164 AS 165
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 56-116 9.53e-15

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: 68.11  E-value: 9.53e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 297827599   56 WSPEQDEALTRLVKKCGpRNWTLMSRGIPGRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMI 116
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 105-148 1.90e-14

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: 66.76  E-value: 1.90e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 297827599  105 RKPFSDEEDHMIMSAHAVLGNKWAVIAKLLPGRTDNAIKNHWNS 148
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQN 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
53-101 1.87e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 64.17  E-value: 1.87e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 297827599    53 KGSWSPEQDEALTRLVKKCGPRNWTLMSRGIPGRSGKSCRLRWCNQLDP 101
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 55-97 9.06e-13

'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: 62.21  E-value: 9.06e-13
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 297827599  55 SWSPEQDEALTRLVKKCGPRNWTLMSRGIPGRSGKSCRLRWCN 97
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 53-99 1.24e-12

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: 61.75  E-value: 1.24e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 297827599   53 KGSWSPEQDEALTRLVKKCGpRNWTLMSRGIPGRSGKSCRLRWCNQL 99
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
105-152 4.30e-09

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 51.84  E-value: 4.30e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 297827599   105 RKPFSDEEDHMIMSAHAVLG-NKWAVIAKLLPGRTDNAIKNHWNSSLRR 152
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 107-150 1.24e-08

'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: 50.27  E-value: 1.24e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 297827599 107 PFSDEEDHMIMSAHAVLG-NKWAVIAKLLPGRTDNAIKNHWNSSL 150
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 108-153 4.73e-05

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: 40.76  E-value: 4.73e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 297827599  108 FSDEEDHMIMSAHAVLGNKWAVIAKLLPGRTDNAIKNHWNSSLRRK 153
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPK 46
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 56-97 1.91e-03

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: 36.01  E-value: 1.91e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 297827599  56 WSPEQDEALTRLVKKCGPRNWTLM---SRGIPGRSGKSCRLRWCN 97
Cdd:cd11660    3 WTDEEDEALVEGVEKYGVGNWAKIlkdYFFVNNRTSVDLKDKWRN 47
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 49-180 5.05e-03

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: 39.00  E-value: 5.05e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297827599  49 KSKVKGSWSPEQDEALTRLVKKCGPRnWTLMSRGIPGRSGKSCRLRWCNQLDPNLKRKPFSDEEDHMIMSAHAvLGNKWA 128
Cdd:COG5147   68 PQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKIDP-FNENSA 145

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 297827599 129 viakLLPGRTDNAIKNHWNSSLRRKPADLWKVPllMSYTEEIYQMHPSKVRK 180
Cdd:COG5147  146 ----RRPDIYEDELLEREVNREASYRLRVPRVS--KADVKPREKGEENNPDI 191
 
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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