YRC Public Data Repository - Protein Structure Prediction

Protein:	PSO2
Organism:	Saccharomyces cerevisiae
Length:	661 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 PSO2.

Description	E-value	Query Range	Subject Range
PSO2 - Nuclease required for a post-incision step in the repair of DNA single and double-strand breaks that... PSO2_YEAST - DNA cross-link repair protein PSO2/SNM1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=...	0.0	[1..661]	[1..661]
gi\|14324879, gi\|... - gi\|14324879\|dbj\|BAB59805.1\| cleavage and polyadenylation specificity factor [Thermoplasma volcanium ...	3.0E-93	[81..657]	[61..628]
RNJ_HELPY - Ribonuclease J OS=Helicobacter pylori (strain ATCC 700392 / 26695) GN=rnj PE=1 SV=1 RNJ_HELPY, Y1430... - (P56185) Hypothetical UPF0036 protein HP1430, UPF0036 protein HP_1430 - Helicobacter pylori (Campylo...	1.0E-92	[16..646]	[8..535]
gi\|7519131 - pir\|\|F71013 hypothetical protein PH1404 - Pyrococcus horikoshii gi\|14591202, gi\|... - gi\|3257827\|dbj\|BAA30510.1\| 651aa long hypothetical protein [Pyrococcus horikoshii OT3], gi\|14591202\|...	3.0E-92	[98..650]	[97..633]
gi\|5458174, gi\|1... - gi\|5458174\|emb\|CAB49663.1\| Cleavage and polyadenylation specficity factor [Pyrococcus abyssi GE5], g... gi\|5458174, gi\|7... - pir\|\|F75118 probable mRNA 3'-end processing factor PAB1868 - Pyrococcus abyssi (strain Orsay), gi\|54...	6.0E-92	[80..650]	[71..633]
gi\|18893520, gi\|... - gi\|18977777\|ref\|NP_579134.1\| cleavage and polyadenylation specifity factor protein [Pyrococcus furio...	4.0E-91	[98..648]	[97..631]
gi\|7465002 - gi\|7465002\|pir\|\|F71821 hypothetical protein jhp1323 - Helicobacter pylori (strain J99) RNJ_HELPJ - Ribonuclease J OS=Helicobacter pylori (strain J99 / ATCC 700824) GN=rnj PE=3 SV=1	8.0E-91	[16..646]	[8..538]
gi\|16082538 - gi\|16082538\|ref\|NP_394086.1\| metal-dependent RNase [Thermoplasma acidophilum DSM 1728]	2.0E-88	[81..657]	[61..628]
gi\|15897661, gi\|... - gi\|15897661\|ref\|NP_342266.1\| mRNA 3'-end processing factor, putative [Sulfolobus solfataricus P2], g... gi\|25392880, gi\|... - gi\|6015715\|emb\|CAB57542.1\| mRNA 3'-end polyadenylation factor [Sulfolobus solfataricus], pir\|\|A99225...	1.0E-86	[79..658]	[70..624]
gi\|19074699, gi\|... - gi\|19074699\|ref\|NP_586205.1\| similarity to HYPOTHETICAL PROTEIN Y162_METJA [Encephalitozoon cuniculi... gi\|19074699 - gi\|19074699\|ref\|NP_586205.1\| similarity to HYPOTHETICAL PROTEIN Y162_METJA [Encephalitozoon cuniculi...	2.0E-85	[148..656]	[38..521]

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Predicted Domain #1

Region A:
Residues: [1-183]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRKSIVQIR RSEVKRKRSS TASSTSEGKT LHKNTHTSSK RQRTLTEFNI PTSSNLPVRS  60
   61 SSYSFSRFSC STSNKNTEPV IINDDDHNSI CLEDTAKVEI TIDTDEEELV SLHDNEVSAI 120
  121 ENRTEDRIVT ELEEQVNVKV STEVIQCPIC LENLSHLELY ERETHCDTCI GSDPSNMGTP 180
  181 KKN

[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: [184-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IRSFISNPSS PAKTKRDIAT SKKPTRVKLV LPSFKIIKFN NGHEIVVDGF NYKASETISQ  60
   61 YFLSHFHSDH YIGLKKSWNN PDENPIKKTL YCSKITAILV NLKFKIPMDE IQI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.30103
Match:	1ddkA_
Description:	Zn metallo-beta-lactamase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [297-406]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPMNKRFWIT DTISVVTLDA NHCPGAIIML FQEFLANSYD KPIRQILHTG DFRSNAKMIE  60
   61 TIQKWLAETA NETIDQVYLD TTYMTMGYNF PSQHSVCETV ADFTLRLIKH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.30103
Match:	1ddkA_
Description:	Zn metallo-beta-lactamase
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [407-466]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKNKTFGDSQ RNLFHFQRKK TLTTHRYRVL FLVGTYTIGK EKLAIKICEF LKTKLFVMPN  60
   61

[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 #5

Region A:
Residues: [467-661]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SVKFSMMLTV LQNNENQNDM WDESLLTSNL HESSVHLVPI RVLKSQETIE AYLKSLKELE  60
   61 TDYVKDIEDV VGFIPTGWSH NFGLKYQKKN DDDENEMSGN TEYCLELMKN DRDNDDENGF 120
  121 EISSILRQYK KYNKFQVFNV PYSEHSSFND LVKFGCKLKC SEVIPTVNLN NLWKVRYMTN 180
  181 WFQCWENVRK TRAAK

[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