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Conserved domains on  [gi|15220910|ref|NP_173237|]
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myb domain protein 52 [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
 5-117 7.91e-27

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 107.37  E-value: 7.91e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220910    5 RGHWRPAEDEKLRELVEQFGPHNWNAIAqKLSG--RSGKSCRLRWFNQLDPRINRNPFTEEEEERLLASHRIHGNRWSVI 82
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVP-KQAGlqRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 15220910   83 ARFFPGRTDNAVKNHWHVIMarrgreRSKLRPRGL 117
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCL------KKKLRQRGI 121
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 5-117 7.91e-27

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 107.37  E-value: 7.91e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220910    5 RGHWRPAEDEKLRELVEQFGPHNWNAIAqKLSG--RSGKSCRLRWFNQLDPRINRNPFTEEEEERLLASHRIHGNRWSVI 82
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVP-KQAGlqRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 15220910   83 ARFFPGRTDNAVKNHWHVIMarrgreRSKLRPRGL 117
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCL------KKKLRQRGI 121
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 6-98 1.04e-20

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: 90.62  E-value: 1.04e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220910   6 GHWRPAEDEKLRELVEQFGPHNWNAIAQKLSGRSGKSCRLRWFNQLDPRINRNPFTEEEEERLLASHRIHGNRWSVIARF 85
Cdd:COG5147  21 GSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIADY 100

                        90
                ....*....|...
gi 15220910  86 FPGRTDNAVKNHW 98
Cdd:COG5147 101 KDRRTAQQCVERY 113
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 8-68 6.12e-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: 72.34  E-value: 6.12e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15220910     8 WRPAEDEKLRELVEQFGPhNWNAIAQKLSGRSGKSCRLRWFNQLDPRINRNPFTEEEEERL 68
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGN-DWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 8-49 5.92e-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: 61.44  E-value: 5.92e-13
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 15220910   8 WRPAEDEKLRELVEQFGPHNWNAIAQKLSGRSGKSCRLRWFN 49
Cdd:cd00167   2 WTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
5-53 1.11e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 60.70  E-value: 1.11e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15220910      5 RGHWRPAEDEKLRELVEQFGPHNWNAIAQKLSGRSGKSCRLRWFNQLDP 53
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 5-117 7.91e-27

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 107.37  E-value: 7.91e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220910    5 RGHWRPAEDEKLRELVEQFGPHNWNAIAqKLSG--RSGKSCRLRWFNQLDPRINRNPFTEEEEERLLASHRIHGNRWSVI 82
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVP-KQAGlqRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 15220910   83 ARFFPGRTDNAVKNHWHVIMarrgreRSKLRPRGL 117
Cdd:PLN03091  93 AAQLPGRTDNEIKNLWNSCL------KKKLRQRGI 121
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 1-105 1.74e-24

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 97.84  E-value: 1.74e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220910    1 MMCSRGHWRPAEDEKLRELVEQFGPHNWNAIAQKLSG-RSGKSCRLRWFNQLDPRINRNPFTEEEEERLLASHRIHGNRW 79
Cdd:PLN03212  21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLlRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRW 100

                         90       100
                 ....*....|....*....|....*.
gi 15220910   80 SVIARFFPGRTDNAVKNHWHVIMARR 105
Cdd:PLN03212 101 SLIAGRIPGRTDNEIKNYWNTHLRKK 126
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 6-98 1.04e-20

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: 90.62  E-value: 1.04e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220910   6 GHWRPAEDEKLRELVEQFGPHNWNAIAQKLSGRSGKSCRLRWFNQLDPRINRNPFTEEEEERLLASHRIHGNRWSVIARF 85
Cdd:COG5147  21 GSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIADY 100

                        90
                ....*....|...
gi 15220910  86 FPGRTDNAVKNHW 98
Cdd:COG5147 101 KDRRTAQQCVERY 113
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 8-68 6.12e-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: 72.34  E-value: 6.12e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15220910     8 WRPAEDEKLRELVEQFGPhNWNAIAQKLSGRSGKSCRLRWFNQLDPRINRNPFTEEEEERL 68
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGN-DWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 57-99 1.55e-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: 65.60  E-value: 1.55e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15220910    57 RNPFTEEEEERLLASHRIHGNRWSVIARFFPGRTDNAVKNHWH 99
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQ 43
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 5-51 1.70e-13

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: 62.91  E-value: 1.70e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15220910     5 RGHWRPAEDEKLRELVEQFGpHNWNAIAQKLSGRSGKSCRLRWFNQL 51
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 8-49 5.92e-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: 61.44  E-value: 5.92e-13
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 15220910   8 WRPAEDEKLRELVEQFGPHNWNAIAQKLSGRSGKSCRLRWFN 49
Cdd:cd00167   2 WTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
5-53 1.11e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 60.70  E-value: 1.11e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15220910      5 RGHWRPAEDEKLRELVEQFGPHNWNAIAQKLSGRSGKSCRLRWFNQLDP 53
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 59-99 1.33e-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: 1.33e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 15220910  59 PFTEEEEERLLASHRIHG-NRWSVIARFFPGRTDNAVKNHWH 99
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWR 42
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
57-104 5.42e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 56.46  E-value: 5.42e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15220910     57 RNPFTEEEEERLLASHRIHG-NRWSVIARFFPGRTDNAVKNHWHVIMAR 104
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 60-99 2.27e-06

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: 43.84  E-value: 2.27e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 15220910    60 FTEEEEERLLASHRIHGNRWSVIARFFPGRTDNAVKNHWH 99
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWR 40
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 53-92 1.12e-04

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: 38.83  E-value: 1.12e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 15220910  53 PRINRNPFTEEEEERLLASHRIHGNRWSVIARFFpGRTDN 92
Cdd:cd11659   1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAPIV-GRTAQ 39
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 8-49 8.49e-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: 8.49e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15220910   8 WRPAEDEKLRELVEQFGPHNWNAIAQK---LSGRSGKSCRLRWFN 49
Cdd:cd11660   3 WTDEEDEALVEGVEKYGVGNWAKILKDyffVNNRTSVDLKDKWRN 47
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 1-65 8.77e-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: 40.16  E-value: 8.77e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15220910   1 MMCSRGHWRPAEDEKLRELVEQFGPHnWNAIAQKLSGRSGKSCRLRWFNQLDPRINRNPFTEEEE 65
Cdd:COG5147  68 PQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRR 131
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 5-69 1.23e-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: 39.77  E-value: 1.23e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15220910   5 RGHWRPAEDEKLRELVEQFGPHnWNAIAqKLSGRSGKSCRLRW--FNQLDPRINRNPFTEEEEERLL 69
Cdd:COG5147 291 RGKWTKEEEQELAKLVVEHGGS-WTEIG-KLLGRMPNDCRDRWrdYVKCGDTLKRNRWSIEEEELLD 355
 
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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