YRC Public Data Repository - Protein Structure Prediction

Protein:	NOB1
Organism:	Saccharomyces cerevisiae
Length:	459 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 NOB1.

Description	E-value	Query Range	Subject Range
NOB1 - Essential nuclear protein involved in proteasome maturation and synthesis of 40S ribosomal subunits;... gi\|190407391 - gi\|190407391\|gb\|EDV10658.1\| NOB1 [Saccharomyces cerevisiae RM11-1a] NOB1_YEAST - 20S-pre-rRNA D-site endonuclease NOB1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NO... gi\|151945682 - gi\|151945682\|gb\|EDN63923.1\| Nin1 binding protein [Saccharomyces cerevisiae YJM789]	0.0	[1..459]	[1..459]
NOB1 - NIN1/RPN12 binding protein 1 homolog (S. cerevisiae)	0.0	[7..458]	[2..407]
gi\|12862002 - gi\|12862002\|dbj\|BAB32325.1\| unnamed protein product [Mus musculus]	0.0	[7..455]	[2..395]
NOB1_SCHPO - 20S-pre-rRNA D-site endonuclease nob1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=nob1... SPAC1486.09 - ribosome biogenesis protein Nob1	0.0	[6..458]	[2..385]
CE27481 - status:Confirmed UniProt:Q9N3D3 protein_id:AAF59552.2	2.0E-91	[4..457]	[3..359]
gi\|9759165, gi\|1... - gi\|9759165\|dbj\|BAB09721.1\| unnamed protein product [Arabidopsis thaliana], gi\|15237579\|ref\|NP_198935...	2.0E-71	[138..454]	[299..594]
gi\|25318950 - pir\|\|B83663 hypothetical protein BH0106 [imported] - Bacillus halodurans (strain C-125) gi\|10172718, gi\|... - gi\|15612669\|ref\|NP_240972.1\| hypothetical protein BH0106 [Bacillus halodurans C-125], gi\|10172718\|db...	1.0E-34	[3..136]	[155..290]
gi\|18893292, gi\|... - gi\|18977577\|ref\|NP_578934.1\| hypothetical protein PF1205 [Pyrococcus furiosus DSM 3638], gi\|18893292...	6.0E-34	[12..134]	[3..118]

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Predicted Domain #1

Region A:
Residues: [1-177]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTENQTAHVR ALILDATPLI TQSYTHYQNY AQSFYTTPTV FQEIKDAQAR KNLEIWQSLG  60
   61 TLKLVHPSEN SIAKVSTFAK LTGDYSVLSA NDLHILALTY ELEIKLNNGD WRLRKKPGDA 120
  121 LDASKADVGT DGKQKLTEDN KKEEDSESVP KKKNKRRGGK KQKAKREARE AREAENA

[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.

Predicted functions:

Term	Confidence	Notes
nuclease activity	2.0989149357263	bayes_pls_golite062009
DNA binding	1.98330542087379	bayes_pls_golite062009
binding	1.91435224223408	bayes_pls_golite062009
nucleic acid binding	1.86243238793767	bayes_pls_golite062009
exonuclease activity	1.7620419369992	bayes_pls_golite062009
endodeoxyribonuclease activity	1.74349203224875	bayes_pls_golite062009
deoxyribonuclease activity	1.68760157046614	bayes_pls_golite062009
endonuclease activity	1.2840172881923	bayes_pls_golite062009
catalytic activity	1.27951740231695	bayes_pls_golite062009
flap endonuclease activity	1.17726395799783	bayes_pls_golite062009
endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	1.07360773846975	bayes_pls_golite062009
5'-3' exonuclease activity	0.974028111038185	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.867731336605067	bayes_pls_golite062009
hydrolase activity	0.827276601361763	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.79417076649627	bayes_pls_golite062009
protein binding	0.695466920831325	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	0.267787854683683	bayes_pls_golite062009
exodeoxyribonuclease activity	0.260397221344929	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [178-459]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NLELESKAEE HVEEAGSKEQ ICNDENIKES SDLNEVFEDA DDDGDWITPE NLTEAIIKDS  60
   61 GEDTTGSLGV EASEEDRHVA LNRPENQVAL ATGDFAVQNV ALQMNLNLMN FMSGLKIKRI 120
  121 RNYMLRCHAC FKIFPLPKDG KPKHFCASCG GQGTLLRCAV SVDSRTGNVT PHLKSNFQWN 180
  181 NRGNRYSVAS PLSKNSQKRY GKKGHVHSKP QENVILREDQ KEYEKVIKQE EWTRRHNEKI 240
  241 LNNWIGGGSA DNYISPFAIT GLKQHNVRIG KGRYVNSSKR RS

[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.

Predicted Domain #3

Region A:
Residues: [223-386]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WITPENLTEA IIKDSGEDTT GSLGVEASEE DRHVALNRPE NQVALATGDF AVQNVALQMN  60
   61 LNLMNFMSGL KIKRIRNYML RCHACFKIFP LPKDGKPKHF CASCGGQGTL LRCAVSVDSR 120
  121 TGNVTPHLKS NFQWNNRGNR YSVASPLSKN SQKRYGKKGH VHSK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.0
Match:	2conA
Description:	Solution Structure of RSGI RUH-035, a Zn-ribbon module in Mouse cDNA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	2.67504868533195	bayes_pls_golite062009
binding	2.1226043957694	bayes_pls_golite062009
nucleic acid binding	1.26170105245043	bayes_pls_golite062009
protein binding	0.874974846355882	bayes_pls_golite062009
catalytic activity	0.316629025709297	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [387-459]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PQENVILRED QKEYEKVIKQ EEWTRRHNEK ILNNWIGGGS ADNYISPFAI TGLKQHNVRI  60
   61 GKGRYVNSSK RRS

[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.

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

Predicted functions:

Predicted functions: