NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15242272|ref|NP_197035|]
View 

myb domain protein 16 [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

 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
 1-131 2.86e-69

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 222.93  E-value: 2.86e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272    1 MGRSPCCDKLGLKKGPWTPEEDQKLLAYIEEHGHGSWRSLPEKAGLHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQTIIQ 80
Cdd:PLN03091   1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 15242272   81 LHALLGNRWSAIATHLPKRTDNEIKNYWNTHLKKRLVKMGIDPVTHKPKNE 131
Cdd:PLN03091  81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSE 131
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 1-131 2.86e-69

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 222.93  E-value: 2.86e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272    1 MGRSPCCDKLGLKKGPWTPEEDQKLLAYIEEHGHGSWRSLPEKAGLHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQTIIQ 80
Cdd:PLN03091   1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 15242272   81 LHALLGNRWSAIATHLPKRTDNEIKNYWNTHLKKRLVKMGIDPVTHKPKNE 131
Cdd:PLN03091  81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSE 131
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 12-176 5.74e-18

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: 84.45  E-value: 5.74e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272  12 LKKGPWTPEEDQKLLAYIEEHGHGSWRSLpEKAGLHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQTIIQLHALLGNRWSA 91
Cdd:COG5147  18 RKGGSWKRTEDEDLKALVKKLGPNNWSKV-ASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272  92 IATHLPKRTDNEIKNYWNTHLKKRLVKMGIDPVT------HKPKNETPLSSLGLSKNAAILSHTAQWESARLeaeaRLAR 165
Cdd:COG5147  97 IADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRrnefdkIDPFNENSARRPDIYEDELLEREVNREASYRL----RVPR 172

                       170
                ....*....|.
gi 15242272 166 ESKLLHLQHYQ 176
Cdd:COG5147 173 VSKADVKPREK 183
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 67-112 3.47e-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: 68.68  E-value: 3.47e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15242272    67 RGKFNLQEEQTIIQLHALLGNRWSAIATHLPKRTDNEIKNYWNTHL 112
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
14-63 3.88e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 60.32  E-value: 3.88e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 15242272     14 KGPWTPEEDQKLLAYIEEHGHGSWRSLPEKAGlHRCGKSCRLRWTNYLRP 63
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 16-61 1.82e-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: 58.36  E-value: 1.82e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15242272  16 PWTPEEDQKLLAYIEEHGHGSWRSLPEKAGlHRCGKSCRLRWTNYL 61
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 1-131 2.86e-69

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 222.93  E-value: 2.86e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272    1 MGRSPCCDKLGLKKGPWTPEEDQKLLAYIEEHGHGSWRSLPEKAGLHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQTIIQ 80
Cdd:PLN03091   1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 15242272   81 LHALLGNRWSAIATHLPKRTDNEIKNYWNTHLKKRLVKMGIDPVTHKPKNE 131
Cdd:PLN03091  81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSE 131
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 4-128 1.69e-61

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 196.45  E-value: 1.69e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272    4 SPCCDKLGLKKGPWTPEEDQKLLAYIEEHGHGSWRSLPEKAGLHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQTIIQLHA 83
Cdd:PLN03212  15 TPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHR 94

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 15242272   84 LLGNRWSAIATHLPKRTDNEIKNYWNTHLKKRLVKMGIDPVTHKP 128
Cdd:PLN03212  95 LLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKP 139
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 12-176 5.74e-18

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: 84.45  E-value: 5.74e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272  12 LKKGPWTPEEDQKLLAYIEEHGHGSWRSLpEKAGLHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQTIIQLHALLGNRWSA 91
Cdd:COG5147  18 RKGGSWKRTEDEDLKALVKKLGPNNWSKV-ASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272  92 IATHLPKRTDNEIKNYWNTHLKKRLVKMGIDPVT------HKPKNETPLSSLGLSKNAAILSHTAQWESARLeaeaRLAR 165
Cdd:COG5147  97 IADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRrnefdkIDPFNENSARRPDIYEDELLEREVNREASYRL----RVPR 172

                       170
                ....*....|.
gi 15242272 166 ESKLLHLQHYQ 176
Cdd:COG5147 173 VSKADVKPREK 183
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 67-112 3.47e-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: 68.68  E-value: 3.47e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15242272    67 RGKFNLQEEQTIIQLHALLGNRWSAIATHLPKRTDNEIKNYWNTHL 112
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 14-61 9.28e-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: 61.75  E-value: 9.28e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15242272    14 KGPWTPEEDQKLLAYIEEHGhGSWRSLPEKAGLhRCGKSCRLRWTNYL 61
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLPG-RTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
14-63 3.88e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 60.32  E-value: 3.88e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 15242272     14 KGPWTPEEDQKLLAYIEEHGHGSWRSLPEKAGlHRCGKSCRLRWTNYLRP 63
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 16-61 1.82e-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: 58.36  E-value: 1.82e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15242272  16 PWTPEEDQKLLAYIEEHGHGSWRSLPEKAGlHRCGKSCRLRWTNYL 61
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
67-114 3.70e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 57.62  E-value: 3.70e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15242272     67 RGKFNLQEEQTIIQLHALLG-NRWSAIATHLPKRTDNEIKNYWNTHLKK 114
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, ...
 17-76 4.61e-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: 57.32  E-value: 4.61e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272    17 WTPEEDQKLLAYIEEHGhGSWRSLPEKAGlHRCGKSCRLRWTNYLRPDIKRGKFNLQEEQ 76
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEEDQ 58
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 69-112 1.46e-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: 1.46e-10
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15242272  69 KFNLQEEQTIIQLHALLG-NRWSAIATHLPKRTDNEIKNYWNTHL 112
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, ...
 70-113 1.75e-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: 44.61  E-value: 1.75e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 15242272    70 FNLQEEQTIIQLHALLGNRWSAIATHLPKRTDNEIKNYWNTHLK 113
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLN 44
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 13-100 1.70e-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: 40.16  E-value: 1.70e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242272  13 KKGPWTPEEDQKLLAYIEEHGhGSWRslPEKAGLHRCGKSCRLRWTNYLRP--DIKRGKFNLQEEQTIIQLHALLGN--- 87
Cdd:COG5147 290 QRGKWTKEEEQELAKLVVEHG-GSWT--EIGKLLGRMPNDCRDRWRDYVKCgdTLKRNRWSIEEEELLDKVVNEMRLeaq 366

                        90
                ....*....|....*...
gi 15242272  88 -----RWSAIATHLPKRT 100
Cdd:COG5147 367 qssriLWLLIAQNIRNRL 384
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 16-38 2.27e-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: 35.62  E-value: 2.27e-03
                        10        20
                ....*....|....*....|...
gi 15242272  16 PWTPEEDQKLLAYIEEHGHGSWR 38
Cdd:cd11660   2 KWTDEEDEALVEGVEKYGVGNWA 24
 
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