NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|566191066|ref|XP_002316060|]
View 

transcription factor MYB108 [Populus trichocarpa]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PLN03091 super family cl33633
hypothetical protein; Provisional
 25-138 5.87e-45

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 158.99  E-value: 5.87e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566191066  25 LRRGPWTVEEDFKLIDYIATHGEGRWNSLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRWSK 104
Cdd:PLN03091  12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQ 91

                         90       100       110
                 ....*....|....*....|....*....|....
gi 566191066 105 IAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVNS 138
Cdd:PLN03091  92 IAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNT 125
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 25-138 5.87e-45

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 158.99  E-value: 5.87e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566191066  25 LRRGPWTVEEDFKLIDYIATHGEGRWNSLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRWSK 104
Cdd:PLN03091  12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQ 91

                         90       100       110
                 ....*....|....*....|....*....|....
gi 566191066 105 IAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVNS 138
Cdd:PLN03091  92 IAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNT 125
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 80-123 7.97e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 67.53  E-value: 7.97e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 566191066   80 RGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRT 123
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQN 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
27-76 6.13e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 62.24  E-value: 6.13e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 566191066    27 RGPWTVEEDFKLIDYIATHGEGRWNSLARCAGlKRTGKSCRLRWLNYLRP 76
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 21-121 1.64e-12

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: 67.89  E-value: 1.64e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566191066  21 MMVDLRRGPWTVEED---FKLIDYIATHGegrWNSLARcAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSR 97
Cdd:COG5147   14 MQTKRKGGSWKRTEDedlKALVKKLGPNN---WSKVAS-LLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKE 89

                         90       100
                 ....*....|....*....|....
gi 566191066  98 WGNRWSKIAQHLPGRTDNEIKNYW 121
Cdd:COG5147   90 LGTQWSTIADYKDRRTAQQCVERY 113
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 29-74 3.11e-12

'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: 3.11e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 566191066  29 PWTVEEDFKLIDYIATHGEGRWNSLARCAGlKRTGKSCRLRWLNYL 74
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 25-138 5.87e-45

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 158.99  E-value: 5.87e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566191066  25 LRRGPWTVEEDFKLIDYIATHGEGRWNSLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRWSK 104
Cdd:PLN03091  12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQ 91

                         90       100       110
                 ....*....|....*....|....*....|....
gi 566191066 105 IAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVNS 138
Cdd:PLN03091  92 IAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNT 125
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 25-127 7.55e-44

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 150.61  E-value: 7.55e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566191066  25 LRRGPWTVEEDFKLIDYIATHGEGRWNSLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRWSK 104
Cdd:PLN03212  23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSL 102

                         90       100
                 ....*....|....*....|...
gi 566191066 105 IAQHLPGRTDNEIKNYWRTRVQK 127
Cdd:PLN03212 103 IAGRIPGRTDNEIKNYWNTHLRK 125
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 80-123 7.97e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 67.53  E-value: 7.97e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 566191066   80 RGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRT 123
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQN 44
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 27-74 9.92e-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: 64.45  E-value: 9.92e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 566191066   27 RGPWTVEEDFKLIDYIATHGeGRWNSLARCAGlKRTGKSCRLRWLNYL 74
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
27-76 6.13e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 62.24  E-value: 6.13e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 566191066    27 RGPWTVEEDFKLIDYIATHGEGRWNSLARCAGlKRTGKSCRLRWLNYLRP 76
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 21-121 1.64e-12

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: 67.89  E-value: 1.64e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566191066  21 MMVDLRRGPWTVEED---FKLIDYIATHGegrWNSLARcAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSR 97
Cdd:COG5147   14 MQTKRKGGSWKRTEDedlKALVKKLGPNN---WSKVAS-LLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKE 89

                         90       100
                 ....*....|....*....|....
gi 566191066  98 WGNRWSKIAQHLPGRTDNEIKNYW 121
Cdd:COG5147   90 LGTQWSTIADYKDRRTAQQCVERY 113
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 29-74 3.11e-12

'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: 3.11e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 566191066  29 PWTVEEDFKLIDYIATHGEGRWNSLARCAGlKRTGKSCRLRWLNYL 74
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 30-87 8.72e-11

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: 56.55  E-value: 8.72e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 566191066   30 WTVEEDFKLIDYIATHGeGRWNSLARCAGlKRTGKSCRLRWLNYLRPDVRRGNITLEE 87
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEE 56
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 84-123 1.31e-10

'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: 1.31e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 566191066  84 TLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRT 123
Cdd:cd00167    3 TEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRN 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
80-123 1.69e-10

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.69  E-value: 1.69e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 566191066    80 RGNITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRT 123
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRN 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 84-123 6.49e-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: 39.99  E-value: 6.49e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 566191066   84 TLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRT 123
Cdd:pfam13921   2 TEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRR 41
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 29-72 9.12e-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: 9.12e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 566191066  29 PWTVEEDFKLIDYIATHGEGRWNS--LARCAGLKRTGKSCRLRWLN 72
Cdd:cd11660    2 KWTDEEDEALVEGVEKYGVGNWAKilKDYFFVNNRTSVDLKDKWRN 47
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH