YRC Public Data Repository - Protein Structure Prediction

Protein:	DPB2
Organism:	Saccharomyces cerevisiae
Length:	692 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 DPB2.

Description	E-value	Query Range	Subject Range
gi\|171412 - gi\|171412\|gb\|AAA34576.1\| DNA polymerase II subunit-B	0.0	[1..692]	[7..698]
gi\|28950027 - gi\|28950027\|emb\|CAD70782.1\| related to DNA directed DNA polymerase II chain B [Neurospora crassa]	0.0	[10..678]	[75..831]
dpb2 - DNA polymerase epsilon catalytic subunit b Dpb2 DPB2_SCHPO - DNA polymerase epsilon subunit B OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dpb2 PE=1...	0.0	[14..686]	[19..588]
DPOE2_MOUSE - DNA polymerase epsilon subunit 2 OS=Mus musculus GN=Pole2 PE=2 SV=2	0.0	[135..690]	[49..523]
gi\|21105458, gi\|... - gi\|27545241\|ref\|NP_775353.1\| DNA-directed DNA polymerase epsilon 2 [Danio rerio], gi\|21105458\|gb\|AAM...	0.0	[128..690]	[43..524]
POLE2 - polymerase (DNA directed), epsilon 2 (p59 subunit)	0.0	[125..690]	[35..524]
gi\|147907164, gi... - gi\|9988418\|dbj\|BAB12726.1\| DNA polymerase epsilon subunit B [Xenopus laevis], gi\|66912072\|gb\|AAH9777...	0.0	[135..690]	[50..524]

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Predicted Domain #1

Region A:
Residues: [1-498]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MCEMFGSGNV LPVKIQPPLL RPLAYRVLSR KYGLSIKSDG LSALAEFVGT NIGANWRQGP  60
   61 ATIKFLEQFA AVWKQQERGL FIDQSGVKEV IQEMKEREKV EWSHEHPIQH EENILGRTDD 120
  121 DENNSDDEMP IAADSSLQNV SLSSPMRQPT ERDEYKQPFK PESSKALDWR DYFKVINASQ 180
  181 QQRFSYNPHK MQFIFVPNKK QNGLGGIAGF LPDIEDKVQM FLTRYYLTND RVMRNENFQN 240
  241 SDMFNPLSSM VSLQNELSNT NRQQQSSSMS ITPIKNLLGR DAQNFLLLGL LNKNFKGNWS 300
  301 LEDPSGSVEI DISQTIPTQG HYYVPGCMVL VEGIYYSVGN KFHVTSMTLP PGERREITLE 360
  361 TIGNLDLLGI HGISNNNFIA RLDKDLKIRL HLLEKELTDH KFVILGANLF LDDLKIMTAL 420
  421 SKILQKLNDD PPTLLIWQGS FTSVPVFASM SSRNISSSTQ FKNNFDALAT LLSRFDNLTE 480
  481 NTTMIFIPGP NDLWGSMV

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [499-692]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SLGASGTLPQ DPIPSAFTKK INKVCKNVVW SSNPTRIAYL SQEIVIFRDD LSGRFKRHRL  60
   61 EFPFNESEDV YTENDNMMSK DTDIVPIDEL VKEPDQLPQK VQETRKLVKT ILDQGHLSPF 120
  121 LDSLRPISWD LDHTLTLCPI PSTMVLCDTT SAQFDLTYNG CKVINPGSFI HNRRARYMEY 180
  181 VPSSKKTIQE EIYI

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits