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View Structure Prediction Details

Protein: DPB3
Organism: Saccharomyces cerevisiae
Length: 201 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 DPB3.

Description E-value Query
Range
Subject
Range
gi|3662 - gi|3662|emb|CAA41403.1| DNA polymerase II subunit C [Saccharomyces cerevisiae]
5.0E-78 [1..201] [1..201]
DPOE4_MOUSE - DNA polymerase epsilon subunit 4 OS=Mus musculus GN=Pole4 PE=1 SV=1
4.0E-4 [12..91] [42..117]
gi|157928759, gi... - gi|208965994|dbj|BAG73011.1| chromatin accessibility complex 1 [synthetic construct], gi|157928759|g...
CHRAC1 - chromatin accessibility complex 1
0.004 [12..93] [19..96]

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Predicted Domain #1
Region A:
Residues: [1-109]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNLVKEKAP VFPISKVKKI AKCDPEYVIT SNVAISATAF AAELFVQNLV EESLVLAQLN  60
   61 SKGKTSLRLS LNSIEECVEK RDNFRFLEDA IKQLKKNSAL DKKRELNMQ

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 12.86
Match: 1jfiA
Description: Negative cofactor 2, NC2, alpha chain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
DNA-directed DNA polymerase activity 7.11495094825518 bayes_pls_golite062009
DNA polymerase activity 7.07317269086318 bayes_pls_golite062009
nucleotidyltransferase activity 4.8449005461991 bayes_pls_golite062009
DNA binding 4.24660531286828 bayes_pls_golite062009
nucleic acid binding 4.14026521609645 bayes_pls_golite062009
transcription regulator activity 3.91807454227165 bayes_pls_golite062009
binding 3.14832737946099 bayes_pls_golite062009
general RNA polymerase II transcription factor activity 2.58437727844306 bayes_pls_golite062009
transcription factor activity 2.39322722597434 bayes_pls_golite062009
transcription repressor activity 2.253406442565 bayes_pls_golite062009
RNA polymerase II transcription factor activity 2.11715713953033 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 1.72510004749125 bayes_pls_golite062009
transferase activity 1.52384026846369 bayes_pls_golite062009
transcription corepressor activity 1.14016287166607 bayes_pls_golite062009
transcription activator activity 1.12739348005764 bayes_pls_golite062009
protein binding 1.01897642648285 bayes_pls_golite062009
transcription factor binding 1.01773884290535 bayes_pls_golite062009
transcription cofactor activity 0.840442755533537 bayes_pls_golite062009
centromeric DNA binding 0.390904810536807 bayes_pls_golite062009
sequence-specific DNA binding 0.0585868733603467 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [110-201]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PGRSDQEVVI EEPELHEDDG VEEEEEEDEV SEEEEPVHNE ELLDDSKDQQ NDKSTRSVAS  60
   61 LLSRFQYKSA LDVGEHSDSS DIEVDHTKST DP

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

    MCM
Score
SCOP
Match
SCOP Description
View Download 0.575 c.47.1 Thioredoxin-like
View Download 0.274 a.77.1 DEATH domain
View Download 0.216 d.42.1 POZ domain
View Download 0.249 a.61.1 Retroviral matrix proteins
View Download 0.245 a.50.1 Anaphylotoxins (complement system)
View Download 0.215 a.1.1 Globin-like
View Download 0.201 a.7.6 Ribosomal protein S20
View Download 0.201 i.1.1 Ribosome and ribosomal fragments
View Download 0.201 a.118.8 TPR-like


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