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View Structure Prediction Details

Protein: DPB4
Organism: Saccharomyces cerevisiae
Length: 196 amino acids
Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076



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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for DPB4.

Description E-value Query
Range		 Subject
Range
ENSMMUT000000317... - null, null
NFYB - nuclear transcription factor Y, beta
ENSCJAT00000028469 - null
gi|123993257, gi... - gi|60656481|gb|AAX32804.1| nuclear transcription factor Y beta [synthetic construct], gi|208966894|d...
 2.0E-50 [1..148] [29..168]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
 2.0E-50 [1..148] [27..166]
gi|579588|emb|CA... - unnamed protein product [Homo sapiens]
NFYB_RAT - Nuclear transcription factor Y subunit beta OS=Rattus norvegicus GN=Nfyb PE=1 SV=1
NFYB_MOUSE - Nuclear transcription factor Y subunit beta OS=Mus musculus GN=Nfyb PE=1 SV=1
 3.0E-50 [1..148] [29..168]
gi|447739 - gi|447739|prf||1915304A nylB upstream ORF
 2.0E-49 [1..148] [29..168]
gi|147901227, gi... - gi|3170225|gb|AAC82336.1| nuclear Y/CCAAT-box binding factor B subunit NF-YB [Xenopus laevis], gi|14...
 2.0E-47 [1..148] [27..167]
NFYB_CHICK - Nuclear transcription factor Y subunit beta OS=Gallus gallus GN=NFYB PE=2 SV=2
 3.0E-45 [1..130] [27..151]
DPB4 - Shared subunit of DNA polymerase (II) epsilon and of ISW2/yCHRAC chromatin accessibility complex; in...
DPB4_YEAST - DNA polymerase epsilon subunit D OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DPB4 PE...
 3.0E-45 [1..196] [1..196]
gi|203355 - gi|203355|gb|AAA40888.1| CCAAT binding transcription factor-B subunit
 9.0E-45 [11..148] [1..130]

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Predicted Domain #1
Region A:
Residues: [1-34] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPPKGWRKDA QGNYPTTSYI KEQENITIQD LLFP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [61-127] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LALQRGATVF VNHLLLFARE IAKSQDKKSC SVDDVLSALD HIGHSALKGP VRDKLDEYQA  60
   61 AVEQRKK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 28.0
Match: 1jfiB_
Description: Negative cofactor 2, NC2, beta chain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
DNA-directed DNA polymerase activity 7.30463919195401 bayes_pls_golite062009
DNA polymerase activity 7.25909396656216 bayes_pls_golite062009
nucleotidyltransferase activity 4.91761894051618 bayes_pls_golite062009
DNA binding 4.49118409263799 bayes_pls_golite062009
nucleic acid binding 4.35201412176948 bayes_pls_golite062009
transcription regulator activity 4.08606081850613 bayes_pls_golite062009
general RNA polymerase II transcription factor activity 4.04353148658823 bayes_pls_golite062009
binding 3.27510691458843 bayes_pls_golite062009
transcription factor activity 2.51581622888695 bayes_pls_golite062009
RNA polymerase II transcription factor activity 2.38228606466152 bayes_pls_golite062009
transcription repressor activity 2.3574713307436 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 1.71244156762178 bayes_pls_golite062009
transferase activity 1.4922191078713 bayes_pls_golite062009
transcription corepressor activity 1.30859203490073 bayes_pls_golite062009
transcription activator activity 1.25487495162413 bayes_pls_golite062009
transcription factor binding 1.15204005455906 bayes_pls_golite062009
transcription coactivator activity 1.1297723528047 bayes_pls_golite062009
protein binding 1.07873333188144 bayes_pls_golite062009
transcription cofactor activity 1.01502031330902 bayes_pls_golite062009
centromeric DNA binding 0.6937627559147 bayes_pls_golite062009
sequence-specific DNA binding 0.0852726470007639 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [35-60] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KSTIVNLARE VPQQSGKKLL INKDAS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [128-196] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EKLDSGEVDA DGDIDMGEDK ENVPVEKVKE HDEIEEQGDA LQDVEESSEK KQKTESQDVE  60
   61 TRVQNLEQT

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 28.0
Match: 1jfiB_
Description: Negative cofactor 2, NC2, beta chain
Matching Structure (courtesy of the PDB):
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle