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Conserved domains on  [gi|15241488|ref|NP_196979|]
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myb domain protein 66 [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 1000535)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein may be involved in the regulation of gene expression

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03212 super family cl31985
Transcription repressor MYB5; Provisional
 17-137 1.35e-53

Transcription repressor MYB5; Provisional


The actual alignment was detected with superfamily member PLN03212:

Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 171.80  E-value: 1.35e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241488   17 KKGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGLKRCGKSCRLRWMNYLSPNVKRGNFTEQEEDLIIRLHKLLGNRWSLI 96
Cdd:PLN03212  24 KRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLI 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 15241488   97 AKRVPGRTDNQVKNYWNTHLSKKL---GIKDQKTKQSNGDIVYQ 137
Cdd:PLN03212 104 AGRIPGRTDNEIKNYWNTHLRKKLlrqGIDPQTHKPLDANNIHK 147
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 17-137 1.35e-53

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 171.80  E-value: 1.35e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241488   17 KKGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGLKRCGKSCRLRWMNYLSPNVKRGNFTEQEEDLIIRLHKLLGNRWSLI 96
Cdd:PLN03212  24 KRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLI 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 15241488   97 AKRVPGRTDNQVKNYWNTHLSKKL---GIKDQKTKQSNGDIVYQ 137
Cdd:PLN03212 104 AGRIPGRTDNEIKNYWNTHLRKKLlrqGIDPQTHKPLDANNIHK 147
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 17-113 4.85e-19

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: 84.07  E-value: 4.85e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241488  17 KKGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGlKRCGKSCRLRWMNYLSPNVKRGNFTEQEEDLIIRLHKLLGNRWSLI 96
Cdd:COG5147  19 KGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTI 97

                        90
                ....*....|....*..
gi 15241488  97 AKRVPGRTDNQVKNYWN 113
Cdd:COG5147  98 ADYKDRRTAQQCVERYV 114
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 71-116 1.99e-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: 72.54  E-value: 1.99e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15241488    71 RGNFTEQEEDLIIRLHKLLGNRWSLIAKRVPGRTDNQVKNYWNTHL 116
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
71-118 4.51e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 61.09  E-value: 4.51e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15241488     71 RGNFTEQEEDLIIRLHKLLG-NRWSLIAKRVPGRTDNQVKNYWNTHLSK 118
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 73-116 7.32e-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: 60.28  E-value: 7.32e-13
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15241488  73 NFTEQEEDLIIRLHKLLG-NRWSLIAKRVPGRTDNQVKNYWNTHL 116
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 17-137 1.35e-53

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 171.80  E-value: 1.35e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241488   17 KKGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGLKRCGKSCRLRWMNYLSPNVKRGNFTEQEEDLIIRLHKLLGNRWSLI 96
Cdd:PLN03212  24 KRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLI 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 15241488   97 AKRVPGRTDNQVKNYWNTHLSKKL---GIKDQKTKQSNGDIVYQ 137
Cdd:PLN03212 104 AGRIPGRTDNEIKNYWNTHLRKKLlrqGIDPQTHKPLDANNIHK 147
PLN03091 PLN03091
hypothetical protein; Provisional
 17-162 3.68e-49

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 165.92  E-value: 3.68e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241488   17 KKGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGLKRCGKSCRLRWMNYLSPNVKRGNFTEQEEDLIIRLHKLLGNRWSLI 96
Cdd:PLN03091  13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15241488   97 AKRVPGRTDNQVKNYWNTHLSKKL---GIkDQKTKQSNGDIVYQINLPNPTETSEETKISNIVDNNNIL 162
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCLKKKLrqrGI-DPNTHKPLSEVENGEDKNPPTDDKSDKASSVVSNELNLL 160
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 17-113 4.85e-19

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: 84.07  E-value: 4.85e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241488  17 KKGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGlKRCGKSCRLRWMNYLSPNVKRGNFTEQEEDLIIRLHKLLGNRWSLI 96
Cdd:COG5147  19 KGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTI 97

                        90
                ....*....|....*..
gi 15241488  97 AKRVPGRTDNQVKNYWN 113
Cdd:COG5147  98 ADYKDRRTAQQCVERYV 114
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 71-116 1.99e-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: 72.54  E-value: 1.99e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15241488    71 RGNFTEQEEDLIIRLHKLLGNRWSLIAKRVPGRTDNQVKNYWNTHL 116
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
71-118 4.51e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 61.09  E-value: 4.51e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15241488     71 RGNFTEQEEDLIIRLHKLLG-NRWSLIAKRVPGRTDNQVKNYWNTHLSK 118
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 73-116 7.32e-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: 60.28  E-value: 7.32e-13
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15241488  73 NFTEQEEDLIIRLHKLLG-NRWSLIAKRVPGRTDNQVKNYWNTHL 116
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 18-65 1.90e-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: 59.44  E-value: 1.90e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15241488    18 KGLWTVEEDKILMDYVKAHGkGHWNRIAKKTGlKRCGKSCRLRWMNYL 65
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
18-67 3.13e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 56.08  E-value: 3.13e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 15241488     18 KGLWTVEEDKILMDYVKAHGKGHWNRIAKKTGlKRCGKSCRLRWMNYLSP 67
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 21-65 4.10e-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: 55.66  E-value: 4.10e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15241488  21 WTVEEDKILMDYVKAHGKGHWNRIAKKTGlKRCGKSCRLRWMNYL 65
Cdd:cd00167   2 WTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 21-79 1.12e-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: 55.01  E-value: 1.12e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15241488    21 WTVEEDKILMDYVKAHGKGhWNRIAKKTGlKRCGKSCRLRWMNYLSPNVKRGNFTEQEE 79
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGND-WKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEED 57
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 74-120 1.80e-07

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: 46.53  E-value: 1.80e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15241488    74 FTEQEEDLIIRLHKLLGNRWSLIAKRVPGRTDNQVKNYWNTHLSKKL 120
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKI 47
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 67-107 3.01e-06

SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, cell division cycle 5-like protein (CDC5) functions in pre-mRNA splicing in cell cycle control. The DNA-binding, myb-like domain of CDC5 is a member of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212557 [Multi-domain]  Cd Length: 53  Bit Score: 43.07  E-value: 3.01e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|.
gi 15241488  67 PNVKRGNFTEQEEDLIIRLHKLLGNRWSLIAKRVpGRTDNQ 107
Cdd:cd11659   1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAPIV-GRTAQQ 40
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 21-47 7.55e-04

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: 36.39  E-value: 7.55e-04
                        10        20
                ....*....|....*....|....*..
gi 15241488  21 WTVEEDKILMDYVKAHGKGHWNRIAKK 47
Cdd:cd11660   3 WTDEEDEALVEGVEKYGVGNWAKILKD 29
 
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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