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Conserved domains on  [gi|566177823|ref|XP_002309470|]
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transcription factor MYB1 [Populus trichocarpa]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03212 super family cl31985
Transcription repressor MYB5; Provisional
 8-113 1.21e-52

Transcription repressor MYB5; Provisional


The actual alignment was detected with superfamily member PLN03212:

Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 171.80  E-value: 1.21e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823   8 GIIRGTWTATEDKILTAYVRNYGEGNWARVPKETGLKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWA 87
Cdd:PLN03212  22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWS 101

                         90       100
                 ....*....|....*....|....*.
gi 566177823  88 LIAGRIPGRTDNEIKNYWNSTLKRKV 113
Cdd:PLN03212 102 LIAGRIPGRTDNEIKNYWNTHLRKKL 127
PLN03091 super family cl33633
hypothetical protein; Provisional
 11-228 1.07e-48

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 167.08  E-value: 1.07e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  11 RGTWTATEDKILTAYVRNYGEGNWARVPKETGLKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWALIA 90
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  91 GRIPGRTDNEIKNYWNSTLKRK-----VQANDQKqPRRGNKDTKKQTRKTSTGLNKAAPCTNSSLPSppVLAENIETDQI 165
Cdd:PLN03091  94 AQLPGRTDNEIKNLWNSCLKKKlrqrgIDPNTHK-PLSEVENGEDKNPPTDDKSDKASSVVSNELNL--LKADNSKPLAA 170

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 566177823 166 LTASSIEEGTLEKYLIENPNSNDELLLFTNDNDVPCNFLMDLDMGQMSFSDFLQTDIFSDSNN 228
Cdd:PLN03091 171 LQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNLMTPTPNKDFFLDRFTTSHESSTTS 233
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 8-113 1.21e-52

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 171.80  E-value: 1.21e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823   8 GIIRGTWTATEDKILTAYVRNYGEGNWARVPKETGLKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWA 87
Cdd:PLN03212  22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWS 101

                         90       100
                 ....*....|....*....|....*.
gi 566177823  88 LIAGRIPGRTDNEIKNYWNSTLKRKV 113
Cdd:PLN03212 102 LIAGRIPGRTDNEIKNYWNTHLRKKL 127
PLN03091 PLN03091
hypothetical protein; Provisional
 11-228 1.07e-48

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 167.08  E-value: 1.07e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  11 RGTWTATEDKILTAYVRNYGEGNWARVPKETGLKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWALIA 90
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  91 GRIPGRTDNEIKNYWNSTLKRK-----VQANDQKqPRRGNKDTKKQTRKTSTGLNKAAPCTNSSLPSppVLAENIETDQI 165
Cdd:PLN03091  94 AQLPGRTDNEIKNLWNSCLKKKlrqrgIDPNTHK-PLSEVENGEDKNPPTDDKSDKASSVVSNELNL--LKADNSKPLAA 170

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 566177823 166 LTASSIEEGTLEKYLIENPNSNDELLLFTNDNDVPCNFLMDLDMGQMSFSDFLQTDIFSDSNN 228
Cdd:PLN03091 171 LQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNLMTPTPNKDFFLDRFTTSHESSTTS 233
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 12-129 6.58e-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: 88.69  E-value: 6.58e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  12 GTWTATEDKILTAYVRNYGEGNWARVPKETGlKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWALIAG 91
Cdd:COG5147   21 GSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIAD 99

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 566177823  92 RIPGRTDNEIKNYWNSTLKRKVQANDQKqPRRGNKDTK 129
Cdd:COG5147  100 YKDRRTAQQCVERYVNTLEDLSSTHDSK-LQRRNEFDK 136
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 64-109 9.40e-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: 69.45  E-value: 9.40e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 566177823   64 RGNISPDEEDLIIRLHKLLGNRWALIAGRIPGRTDNEIKNYWNSTL 109
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
64-111 4.26e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 59.54  E-value: 4.26e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 566177823    64 RGNISPDEEDLIIRLHKLLG-NRWALIAGRIPGRTDNEIKNYWNSTLKR 111
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 68-109 4.81e-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: 56.43  E-value: 4.81e-11
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 566177823  68 SPDEEDLIIRLHKLLG-NRWALIAGRIPGRTDNEIKNYWNSTL 109
Cdd:cd00167    3 TEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 8-113 1.21e-52

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 171.80  E-value: 1.21e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823   8 GIIRGTWTATEDKILTAYVRNYGEGNWARVPKETGLKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWA 87
Cdd:PLN03212  22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWS 101

                         90       100
                 ....*....|....*....|....*.
gi 566177823  88 LIAGRIPGRTDNEIKNYWNSTLKRKV 113
Cdd:PLN03212 102 LIAGRIPGRTDNEIKNYWNTHLRKKL 127
PLN03091 PLN03091
hypothetical protein; Provisional
 11-228 1.07e-48

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 167.08  E-value: 1.07e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  11 RGTWTATEDKILTAYVRNYGEGNWARVPKETGLKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWALIA 90
Cdd:PLN03091  14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  91 GRIPGRTDNEIKNYWNSTLKRK-----VQANDQKqPRRGNKDTKKQTRKTSTGLNKAAPCTNSSLPSppVLAENIETDQI 165
Cdd:PLN03091  94 AQLPGRTDNEIKNLWNSCLKKKlrqrgIDPNTHK-PLSEVENGEDKNPPTDDKSDKASSVVSNELNL--LKADNSKPLAA 170

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 566177823 166 LTASSIEEGTLEKYLIENPNSNDELLLFTNDNDVPCNFLMDLDMGQMSFSDFLQTDIFSDSNN 228
Cdd:PLN03091 171 LQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNLMTPTPNKDFFLDRFTTSHESSTTS 233
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 12-129 6.58e-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: 88.69  E-value: 6.58e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 566177823  12 GTWTATEDKILTAYVRNYGEGNWARVPKETGlKRCGKSCRLRWLNYLKPDVKRGNISPDEEDLIIRLHKLLGNRWALIAG 91
Cdd:COG5147   21 GSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIAD 99

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 566177823  92 RIPGRTDNEIKNYWNSTLKRKVQANDQKqPRRGNKDTK 129
Cdd:COG5147  100 YKDRRTAQQCVERYVNTLEDLSSTHDSK-LQRRNEFDK 136
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 64-109 9.40e-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: 69.45  E-value: 9.40e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 566177823   64 RGNISPDEEDLIIRLHKLLGNRWALIAGRIPGRTDNEIKNYWNSTL 109
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
64-111 4.26e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 59.54  E-value: 4.26e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 566177823    64 RGNISPDEEDLIIRLHKLLG-NRWALIAGRIPGRTDNEIKNYWNSTLKR 111
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 11-58 6.00e-12

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: 59.05  E-value: 6.00e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 566177823   11 RGTWTATEDKILTAYVRNYGeGNWARVPKETGlKRCGKSCRLRWLNYL 58
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
11-60 2.33e-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: 2.33e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 566177823    11 RGTWTATEDKILTAYVRNYGEGNWARVPKETGlKRCGKSCRLRWLNYLKP 60
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 68-109 4.81e-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: 56.43  E-value: 4.81e-11
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 566177823  68 SPDEEDLIIRLHKLLG-NRWALIAGRIPGRTDNEIKNYWNSTL 109
Cdd:cd00167    3 TEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 13-58 2.47e-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: 54.50  E-value: 2.47e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 566177823  13 TWTATEDKILTAYVRNYGEGNWARVPKETGlKRCGKSCRLRWLNYL 58
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, ...
 14-72 9.52e-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: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 53.47  E-value: 9.52e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 566177823   14 WTATEDKILTAYVRNYGeGNWARVPKETGlKRCGKSCRLRWLNYLKPDVKRGNISPDEE 72
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEED 57
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 68-114 1.85e-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: 44.22  E-value: 1.85e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 566177823   68 SPDEEDLIIRLHKLLGNRWALIAGRIPGRTDNEIKNYWNSTLKRKVQ 114
Cdd:pfam13921   2 TEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKIS 48
 
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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