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Conserved domains on  [gi|15219651|ref|NP_176813|]
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myb domain protein 90 [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
 7-111 5.71e-43

Transcription repressor MYB5; Provisional


The actual alignment was detected with superfamily member PLN03212:

Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 145.99  E-value: 5.71e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15219651    7 GLRKGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPSIKRGRLSNDEVDLLLRLHKLLGNRWS 86
Cdd:PLN03212  22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWS 101

                         90       100
                 ....*....|....*....|....*
gi 15219651   87 LIAGRLPGRTANDVKNYWNTHLSKK 111
Cdd:PLN03212 102 LIAGRIPGRTDNEIKNYWNTHLRKK 126
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 7-111 5.71e-43

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 145.99  E-value: 5.71e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15219651    7 GLRKGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPSIKRGRLSNDEVDLLLRLHKLLGNRWS 86
Cdd:PLN03212  22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWS 101

                         90       100
                 ....*....|....*....|....*
gi 15219651   87 LIAGRLPGRTANDVKNYWNTHLSKK 111
Cdd:PLN03212 102 LIAGRIPGRTDNEIKNYWNTHLRKK 126
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 10-57 1.25e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 55.20  E-value: 1.25e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15219651    10 KGAWTAEEDSLLRLCIDKYGeGKWHQVPLRAGlNRCRKSCRLRWLNYL 57
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 8-105 1.37e-10

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: 60.57  E-value: 1.37e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15219651   8 LRKGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGLnRCRKSCRLRWLNYLKPSIKRGRLSNDEVDLLLRLHKLLGNRWSL 87
Cdd:COG5147  18 RKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96

                        90
                ....*....|....*...
gi 15219651  88 IAGRLPGRTANDVKNYWN 105
Cdd:COG5147  97 IADYKDRRTAQQCVERYV 114
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
10-59 1.53e-10

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 54.92  E-value: 1.53e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 15219651     10 KGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGlNRCRKSCRLRWLNYLKP 59
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 12-57 1.95e-09

'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: 51.81  E-value: 1.95e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15219651  12 AWTAEEDSLLRLCIDKYGEGKWHQVPLRAGlNRCRKSCRLRWLNYL 57
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 7-111 5.71e-43

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 145.99  E-value: 5.71e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15219651    7 GLRKGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPSIKRGRLSNDEVDLLLRLHKLLGNRWS 86
Cdd:PLN03212  22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWS 101

                         90       100
                 ....*....|....*....|....*
gi 15219651   87 LIAGRLPGRTANDVKNYWNTHLSKK 111
Cdd:PLN03212 102 LIAGRIPGRTDNEIKNYWNTHLRKK 126
PLN03091 PLN03091
hypothetical protein; Provisional
 8-111 7.46e-37

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 135.10  E-value: 7.46e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15219651    8 LRKGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPSIKRGRLSNDEVDLLLRLHKLLGNRWSL 87
Cdd:PLN03091  12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQ 91

                         90       100
                 ....*....|....*....|....
gi 15219651   88 IAGRLPGRTANDVKNYWNTHLSKK 111
Cdd:PLN03091  92 IAAQLPGRTDNEIKNLWNSCLKKK 115
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 10-57 1.25e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 55.20  E-value: 1.25e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15219651    10 KGAWTAEEDSLLRLCIDKYGeGKWHQVPLRAGlNRCRKSCRLRWLNYL 57
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 8-105 1.37e-10

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: 60.57  E-value: 1.37e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15219651   8 LRKGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGLnRCRKSCRLRWLNYLKPSIKRGRLSNDEVDLLLRLHKLLGNRWSL 87
Cdd:COG5147  18 RKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96

                        90
                ....*....|....*...
gi 15219651  88 IAGRLPGRTANDVKNYWN 105
Cdd:COG5147  97 IADYKDRRTAQQCVERYV 114
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
10-59 1.53e-10

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 54.92  E-value: 1.53e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 15219651     10 KGAWTAEEDSLLRLCIDKYGEGKWHQVPLRAGlNRCRKSCRLRWLNYLKP 59
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 12-57 1.95e-09

'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: 51.81  E-value: 1.95e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15219651  12 AWTAEEDSLLRLCIDKYGEGKWHQVPLRAGlNRCRKSCRLRWLNYL 57
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 82-108 9.07e-08

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: 47.50  E-value: 9.07e-08
                          10        20
                  ....*....|....*....|....*..
gi 15219651    82 GNRWSLIAGRLPGRTANDVKNYWNTHL 108
Cdd:pfam00249  20 GNRWKKIAKLLPGRTDNQCKNRWQNYL 46
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 13-71 2.74e-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: 2.74e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15219651    13 WTAEEDSLLRLCIDKYGeGKWHQVPLRAGlNRCRKSCRLRWLNYLKPSIKRGRLSNDEV 71
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEED 57
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 83-108 4.31e-06

'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: 42.56  E-value: 4.31e-06
                        10        20
                ....*....|....*....|....*.
gi 15219651  83 NRWSLIAGRLPGRTANDVKNYWNTHL 108
Cdd:cd00167  20 NNWEKIAKELPGRTPKQCRERWRNLL 45
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 13-33 8.31e-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: 33.69  E-value: 8.31e-03
                        10        20
                ....*....|....*....|.
gi 15219651  13 WTAEEDSLLRLCIDKYGEGKW 33
Cdd:cd11660   3 WTDEEDEALVEGVEKYGVGNW 23
 
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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