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Conserved domains on  [gi|2756274533|ref|XP_066168628|]
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transcription factor MYB4-like isoform X1 [Oryza sativa Japonica Group]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03091 super family cl33633
hypothetical protein; Provisional
 88-164 6.80e-31

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 115.84  E-value: 6.80e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2756274533  88 VKKGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGVMRCSKSCRLRWTNYLRPGIKRGNFTEQEEKLIVHLQALLGNR 164
Cdd:PLN03091   12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 88-164 6.80e-31

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 115.84  E-value: 6.80e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2756274533  88 VKKGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGVMRCSKSCRLRWTNYLRPGIKRGNFTEQEEKLIVHLQALLGNR 164
Cdd:PLN03091   12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 83-164 2.36e-13

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: 66.73  E-value: 2.36e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756274533  83 LRQGWVKKGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGvMRCSKSCRLRWTNYLRPGIKRGNFTEQEEKLIVHLQALLG 162
Cdd:COG5147    13 LMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELG 91


                  ..
gi 2756274533 163 NR 164
Cdd:COG5147    92 TQ 93
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 90-137 2.03e-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: 58.28  E-value: 2.03e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2756274533  90 KGPWTPEEDLMLASYIQEHGsGNWRAVPTNTGvMRCSKSCRLRWTNYL 137
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
90-139 6.78e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 57.23  E-value: 6.78e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 2756274533   90 KGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGVmRCSKSCRLRWTNYLRP 139
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 92-137 3.14e-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: 55.27  E-value: 3.14e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2756274533  92 PWTPEEDLMLASYIQEHGSGNWRAVPTNTGvMRCSKSCRLRWTNYL 137
Cdd:cd00167     1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 88-164 6.80e-31

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 115.84  E-value: 6.80e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2756274533  88 VKKGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGVMRCSKSCRLRWTNYLRPGIKRGNFTEQEEKLIVHLQALLGNR 164
Cdd:PLN03091   12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 88-164 8.49e-30

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 109.01  E-value: 8.49e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2756274533  88 VKKGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGVMRCSKSCRLRWTNYLRPGIKRGNFTEQEEKLIVHLQALLGNR 164
Cdd:PLN03212   23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR 99
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 83-164 2.36e-13

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: 66.73  E-value: 2.36e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756274533  83 LRQGWVKKGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGvMRCSKSCRLRWTNYLRPGIKRGNFTEQEEKLIVHLQALLG 162
Cdd:COG5147    13 LMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELG 91


                  ..
gi 2756274533 163 NR 164
Cdd:COG5147    92 TQ 93
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 90-137 2.03e-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: 58.28  E-value: 2.03e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2756274533  90 KGPWTPEEDLMLASYIQEHGsGNWRAVPTNTGvMRCSKSCRLRWTNYL 137
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
90-139 6.78e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 57.23  E-value: 6.78e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 2756274533   90 KGPWTPEEDLMLASYIQEHGSGNWRAVPTNTGVmRCSKSCRLRWTNYLRP 139
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 92-137 3.14e-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: 55.27  E-value: 3.14e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2756274533  92 PWTPEEDLMLASYIQEHGSGNWRAVPTNTGvMRCSKSCRLRWTNYL 137
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, ...
 93-151 1.85e-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: 53.85  E-value: 1.85e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2756274533  93 WTPEEDLMLASYIQEHGSgNWRAVPTNTGVmRCSKSCRLRWTNYLRPGIKRGNFTEQEE 151
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGN-DWKQIAKELGR-RTPKQCFDRWRRKLNPKISRGPWSKEED 57
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 89-154 4.78e-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: 39.39  E-value: 4.78e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2756274533  89 KKGPWTPEEDLMLASYIQEHGsGNWRAVPTNTGVMRcsKSCRLRWTNYLRPG--IKRGNFTEQEEKLI 154
Cdd:COG5147   290 QRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLGRMP--NDCRDRWRDYVKCGdtLKRNRWSIEEEELL 354
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 92-116 6.73e-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: 33.31  E-value: 6.73e-03
                          10        20
                  ....*....|....*....|....*
gi 2756274533  92 PWTPEEDLMLASYIQEHGSGNWRAV 116
Cdd:cd11660     2 KWTDEEDEALVEGVEKYGVGNWAKI 26
 
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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