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Conserved domains on  [gi|848856589|ref|XP_012857606|]
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PREDICTED: nuclear transcription factor Y subunit B-1-like [Erythranthe guttata]

Protein Classification

nuclear transcription factor Y subunit beta( domain architecture ID 19223195)

NF-YB, also called CAAT box DNA-binding protein subunit B, or nuclear transcription factor Y subunit B, is a component of the sequence-specific heterotrimeric transcription factor (NF-Y), which specifically recognizes the 5'-CCAAT-3' box motif found in the promoters of its target genes

CATH:  1.10.20.10
Gene Ontology:  GO:0003677|GO:0003700|GO:0046982|GO:0016602|GO:0006357|GO:0140297
PubMed:  1549471|23332751
SCOP:  4000797

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HFD_NFYB cd22907
histone-fold domain found in nuclear transcription factor Y subunit beta (NF-YB) and similar ...
 1-84 2.93e-38

histone-fold domain found in nuclear transcription factor Y subunit beta (NF-YB) and similar proteins; NF-YB, also called CAAT box DNA-binding protein subunit B, or nuclear transcription factor Y subunit B, is a component of the sequence-specific heterotrimeric transcription factor (NF-Y), which specifically recognizes the 5'-CCAAT-3' box motif found in the promoters of its target genes. NF-Y can function as both an activator and a repressor, depending on its interacting cofactors. NF-Y is a heterotrimeric transcription factor composed of three components, NF-YA, NF-YB and NF-YC. NF-YB and NF-YC must interact and dimerize for NF-YA association and DNA binding.


:

Pssm-ID: 467032  Cd Length: 91  Bit Score: 126.13  E-value: 2.93e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   1 MPIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFL 80
Cdd:cd22907    8 LPIANIARIMKKALPPNAKISKDAKETMQECVSEFISFVTSEASERCQREKRKTITGDDILWAMSTLGFDNYVEPLKIYL 87


                 ....
gi 848856589  81 NNHR 84
Cdd:cd22907   88 QKYR 91
 
Name Accession Description Interval E-value
HFD_NFYB cd22907
histone-fold domain found in nuclear transcription factor Y subunit beta (NF-YB) and similar ...
 1-84 2.93e-38

histone-fold domain found in nuclear transcription factor Y subunit beta (NF-YB) and similar proteins; NF-YB, also called CAAT box DNA-binding protein subunit B, or nuclear transcription factor Y subunit B, is a component of the sequence-specific heterotrimeric transcription factor (NF-Y), which specifically recognizes the 5'-CCAAT-3' box motif found in the promoters of its target genes. NF-Y can function as both an activator and a repressor, depending on its interacting cofactors. NF-Y is a heterotrimeric transcription factor composed of three components, NF-YA, NF-YB and NF-YC. NF-YB and NF-YC must interact and dimerize for NF-YA association and DNA binding.


Pssm-ID: 467032  Cd Length: 91  Bit Score: 126.13  E-value: 2.93e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   1 MPIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFL 80
Cdd:cd22907    8 LPIANIARIMKKALPPNAKISKDAKETMQECVSEFISFVTSEASERCQREKRKTITGDDILWAMSTLGFDNYVEPLKIYL 87


                 ....
gi 848856589  81 NNHR 84
Cdd:cd22907   88 QKYR 91
CBFD_NFYB_HMF pfam00808
Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes ...
 1-64 3.66e-16

Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes archaebacterial histones and histone like transcription factors from eukaryotes.


Pssm-ID: 395650  Cd Length: 65  Bit Score: 68.79  E-value: 3.66e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 848856589    1 MPIANITRILRRVlPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAM 64
Cdd:pfam00808   3 LPIARVKRIMKSD-PDAGRISQDAKELIAECVEEFIEFVASEAAEICNKAGRKTINPEHIKQAV 65
COG5150 COG5150
Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription];
1-87 3.25e-12

Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription];


Pssm-ID: 227479  Cd Length: 148  Bit Score: 60.75  E-value: 3.25e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   1 MPIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFL 80
Cdd:COG5150   12 LPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIESCMEEH 91


                 ....*..
gi 848856589  81 NNHRTQQ 87
Cdd:COG5150   92 ENYKSYQ 98
 
Name Accession Description Interval E-value
HFD_NFYB cd22907
histone-fold domain found in nuclear transcription factor Y subunit beta (NF-YB) and similar ...
 1-84 2.93e-38

histone-fold domain found in nuclear transcription factor Y subunit beta (NF-YB) and similar proteins; NF-YB, also called CAAT box DNA-binding protein subunit B, or nuclear transcription factor Y subunit B, is a component of the sequence-specific heterotrimeric transcription factor (NF-Y), which specifically recognizes the 5'-CCAAT-3' box motif found in the promoters of its target genes. NF-Y can function as both an activator and a repressor, depending on its interacting cofactors. NF-Y is a heterotrimeric transcription factor composed of three components, NF-YA, NF-YB and NF-YC. NF-YB and NF-YC must interact and dimerize for NF-YA association and DNA binding.


Pssm-ID: 467032  Cd Length: 91  Bit Score: 126.13  E-value: 2.93e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   1 MPIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFL 80
Cdd:cd22907    8 LPIANIARIMKKALPPNAKISKDAKETMQECVSEFISFVTSEASERCQREKRKTITGDDILWAMSTLGFDNYVEPLKIYL 87


                 ....
gi 848856589  81 NNHR 84
Cdd:cd22907   88 QKYR 91
HFD_POLE3_DPB4 cd22928
histone-fold domain found in DNA polymerase epsilon subunit 3 (POLE3) and similar proteins; ...
 1-83 3.22e-21

histone-fold domain found in DNA polymerase epsilon subunit 3 (POLE3) and similar proteins; POLE3, also called arsenic-transactivated protein (AsTP), chromatin accessibility complex 17 kDa protein (CHRAC-17), DNA polymerase II subunit 3, or DNA polymerase epsilon subunit p17, may participate in DNA repair and in chromosomal DNA replication. It is an accessory component of the DNA polymerase epsilon complex, which consists of four subunits: the catalytic subunit POLE and the accessory subunits POLE2, POLE3 and POLE4. It forms a complex with CHRAC1 and binds naked DNA, which is then incorporated into chromatin, aided by the nucleosome-remodeling activity of ISWI/SNF2H and ACF1. In fungi, POLE3 has been named as DNA polymerase epsilon subunit D (DPB4, also known as DNA polymerase II subunit D). DPB4 acts as an accessory component of the DNA polymerase epsilon (DNA polymerase II) that consists of POL2, DPB2, DPB3 and DPB4, and participates in chromosomal DNA replication. It also functions as a component of the ISW2 complex, which acts in remodeling the chromatin by catalyzing an ATP-dependent alteration in the structure of nucleosomal DNA.


Pssm-ID: 467053  Cd Length: 87  Bit Score: 82.56  E-value: 3.22e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   1 MPIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFL 80
Cdd:cd22928    5 LPRAVITRIIKEALPEGVQVSKDARLALSRAATVFILYLTAAANEIAKSNKRKTISADDVLKALEELEFDEFVPPLKEEL 84


                 ...
gi 848856589  81 NNH 83
Cdd:cd22928   85 EAY 87
HFD_Dr1 cd22905
histone-fold domain found in protein Dr1 and similar proteins; Dr1, also called down-regulator ...
 2-87 3.46e-20

histone-fold domain found in protein Dr1 and similar proteins; Dr1, also called down-regulator of transcription 1 or negative cofactor 2-beta (NC2-beta), is a TATA-binding protein-associated phosphoprotein and inhibitor of class II gene transcription. It forms a heterodimer with DRAP1. The association of the Dr1/DRAP1 heterodimer with TBP results in functional repression of both activated and basal transcription of class II genes. Dr1 can bind to DNA on its own. Dr1 is a component of the ADA2A-containing complex (ATAC) that has histone acetyltransferase activity on histones H3 and H4.


Pssm-ID: 467030  Cd Length: 129  Bit Score: 81.07  E-value: 3.46e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   2 PIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFLN 81
Cdd:cd22905    7 PKATVNKLIKEVLPPDMRVSKDTRELILECCTEFIHLISSEANEICEKEKKKTISPEHVLKALENLGFGEYIEEVEEALE 86


                 ....*.
gi 848856589  82 NHRTQQ 87
Cdd:cd22905   87 DHKEEA 92
CBFD_NFYB_HMF pfam00808
Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes ...
 1-64 3.66e-16

Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes archaebacterial histones and histone like transcription factors from eukaryotes.


Pssm-ID: 395650  Cd Length: 65  Bit Score: 68.79  E-value: 3.66e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 848856589    1 MPIANITRILRRVlPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAM 64
Cdd:pfam00808   3 LPIARVKRIMKSD-PDAGRISQDAKELIAECVEEFIEFVASEAAEICNKAGRKTINPEHIKQAV 65
COG5150 COG5150
Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription];
1-87 3.25e-12

Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription];


Pssm-ID: 227479  Cd Length: 148  Bit Score: 60.75  E-value: 3.25e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 848856589   1 MPIANITRILRRVLPTHAKIADDAKEAIQECVSEFISFITAEANRRCRRDYRRTVTPEDVLAAMASLGFGDYLESLTVFL 80
Cdd:COG5150   12 LPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIESCMEEH 91


                 ....*..
gi 848856589  81 NNHRTQQ 87
Cdd:COG5150   92 ENYKSYQ 98
 
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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