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Conserved domains on  [gi|257344755|emb|CBC06645|]
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unnamed protein product [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
 1-195 1.00e-64

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 212.53  E-value: 1.00e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755   1 MGRSPCCDENGLKKGPWTPEEDQKLIDYIHKHGHGSWRALPKLADLNRCGKSCRLRWTNYLRPDIKRGKFSAEEEQTILH 80
Cdd:PLN03091   1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755  81 LHSILGNKWSAIATHLQGRTDNEIKNFWNTHLKKKLIQMGIDPVTHQP--------------------RTDLFASLPQLI 140
Cdd:PLN03091  81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPlsevengedknpptddksdkASSVVSNELNLL 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 257344755 141 ALANLKDLIEQTSQFSSMQGEAAqlanlQYLQRMFNSSASLTNNNGNNFSPSSIL 195
Cdd:PLN03091 161 KADNSKPLAALQEKRSSSISPAG-----YQLEVESSSSSKINNSNNNNHSNSNLM 210
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 1-195 1.00e-64

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 212.53  E-value: 1.00e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755   1 MGRSPCCDENGLKKGPWTPEEDQKLIDYIHKHGHGSWRALPKLADLNRCGKSCRLRWTNYLRPDIKRGKFSAEEEQTILH 80
Cdd:PLN03091   1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755  81 LHSILGNKWSAIATHLQGRTDNEIKNFWNTHLKKKLIQMGIDPVTHQP--------------------RTDLFASLPQLI 140
Cdd:PLN03091  81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPlsevengedknpptddksdkASSVVSNELNLL 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 257344755 141 ALANLKDLIEQTSQFSSMQGEAAqlanlQYLQRMFNSSASLTNNNGNNFSPSSIL 195
Cdd:PLN03091 161 KADNSKPLAALQEKRSSSISPAG-----YQLEVESSSSSKINNSNNNNHSNSNLM 210
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 67-112 1.15e-16

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: 72.92  E-value: 1.15e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 257344755   67 RGKFSAEEEQTILHLHSILGNKWSAIATHLQGRTDNEIKNFWNTHL 112
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 12-109 1.99e-14

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: 74.44  E-value: 1.99e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755  12 LKKGPWTPEEDQKLIDYIHKHGHGSWRALPKLADLnRCGKSCRLRWTNYLRPDIKRGKFSAEEEQTILHLHSILGNKWSA 91
Cdd:COG5147   18 RKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96

                         90
                 ....*....|....*...
gi 257344755  92 IATHLQGRTDNEIKNFWN 109
Cdd:COG5147   97 IADYKDRRTAQQCVERYV 114
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
14-63 1.70e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 64.17  E-value: 1.70e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 257344755    14 KGPWTPEEDQKLIDYIHKHGHGSWRALPKLAdLNRCGKSCRLRWTNYLRP 63
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL-PGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 16-61 2.02e-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: 61.05  E-value: 2.02e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 257344755  16 PWTPEEDQKLIDYIHKHGHGSWRALPKLAdLNRCGKSCRLRWTNYL 61
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGKNNWEKIAKEL-PGRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 1-195 1.00e-64

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 212.53  E-value: 1.00e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755   1 MGRSPCCDENGLKKGPWTPEEDQKLIDYIHKHGHGSWRALPKLADLNRCGKSCRLRWTNYLRPDIKRGKFSAEEEQTILH 80
Cdd:PLN03091   1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755  81 LHSILGNKWSAIATHLQGRTDNEIKNFWNTHLKKKLIQMGIDPVTHQP--------------------RTDLFASLPQLI 140
Cdd:PLN03091  81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPlsevengedknpptddksdkASSVVSNELNLL 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 257344755 141 ALANLKDLIEQTSQFSSMQGEAAqlanlQYLQRMFNSSASLTNNNGNNFSPSSIL 195
Cdd:PLN03091 161 KADNSKPLAALQEKRSSSISPAG-----YQLEVESSSSSKINNSNNNNHSNSNLM 210
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 4-128 8.77e-59

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 190.67  E-value: 8.77e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755   4 SPCCDENGLKKGPWTPEEDQKLIDYIHKHGHGSWRALPKLADLNRCGKSCRLRWTNYLRPDIKRGKFSAEEEQTILHLHS 83
Cdd:PLN03212  15 TPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHR 94

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 257344755  84 ILGNKWSAIATHLQGRTDNEIKNFWNTHLKKKLIQMGIDPVTHQP 128
Cdd:PLN03212  95 LLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKP 139
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 67-112 1.15e-16

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: 72.92  E-value: 1.15e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 257344755   67 RGKFSAEEEQTILHLHSILGNKWSAIATHLQGRTDNEIKNFWNTHL 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 1.90e-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: 66.76  E-value: 1.90e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 257344755   14 KGPWTPEEDQKLIDYIHKHGhGSWRALPKLADlNRCGKSCRLRWTNYL 61
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 12-109 1.99e-14

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: 74.44  E-value: 1.99e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 257344755  12 LKKGPWTPEEDQKLIDYIHKHGHGSWRALPKLADLnRCGKSCRLRWTNYLRPDIKRGKFSAEEEQTILHLHSILGNKWSA 91
Cdd:COG5147   18 RKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96

                         90
                 ....*....|....*...
gi 257344755  92 IATHLQGRTDNEIKNFWN 109
Cdd:COG5147   97 IADYKDRRTAQQCVERYV 114
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
14-63 1.70e-13

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 64.17  E-value: 1.70e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 257344755    14 KGPWTPEEDQKLIDYIHKHGHGSWRALPKLAdLNRCGKSCRLRWTNYLRP 63
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL-PGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 16-61 2.02e-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: 61.05  E-value: 2.02e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 257344755  16 PWTPEEDQKLIDYIHKHGHGSWRALPKLAdLNRCGKSCRLRWTNYL 61
Cdd:cd00167    1 PWTEEEDELLLEAVKKYGKNNWEKIAKEL-PGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
67-114 4.48e-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: 4.48e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 257344755    67 RGKFSAEEEQTILHLHSILG-NKWSAIATHLQGRTDNEIKNFWNTHLKK 114
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 69-112 1.93e-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: 1.93e-11
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 257344755  69 KFSAEEEQTILHLHSILG-NKWSAIATHLQGRTDNEIKNFWNTHL 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, ...
 17-76 2.78e-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: 58.48  E-value: 2.78e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 257344755   17 WTPEEDQKLIDYIHKHGhGSWRALPKlaDLN-RCGKSCRLRWTNYLRPDIKRGKFSAEEEQ 76
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAK--ELGrRTPKQCFDRWRRKLNPKISRGPWSKEEDQ 58
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 70-116 2.58e-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: 41.53  E-value: 2.58e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 257344755   70 FSAEEEQTILHLHSILGNKWSAIATHLQGRTDNEIKNFWNTHLKKKL 116
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, ...
 63-102 1.67e-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: 1.67e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 257344755  63 PDIKRGKFSAEEEQTILHLHSILGNKWSAIAThLQGRTDN 102
Cdd:cd11659    1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAP-IVGRTAQ 39
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 16-59 2.19e-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: 38.70  E-value: 2.19e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 257344755  16 PWTPEEDQKLIDYIHKHGHGSWRALPKLADL--NRCGKSCRLRWTN 59
Cdd:cd11660    2 KWTDEEDEALVEGVEKYGVGNWAKILKDYFFvnNRTSVDLKDKWRN 47
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 12-53 2.60e-03

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: 35.75  E-value: 2.60e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 257344755  12 LKKGPWTPEEDQKLIdYIHKHGHGSWRALPKLadLNRCGKSC 53
Cdd:cd11659    3 IKKTEWTREEDEKLL-HLAKLLPTQWRTIAPI--VGRTAQQC 41
 
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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