YRC Public Data Repository - Protein Structure Prediction

Protein:	PRD1
Organism:	Saccharomyces cerevisiae
Length:	712 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 PRD1.

Description	E-value	Query Range	Subject Range
gi\|124528584, gi... - gi\|124528584\|ref\|ZP_01699862.1\| Oligopeptidase A [Escherichia coli B], gi\|124500425\|gb\|EAY47898.1\| O... EG11441 - oligopeptidase A / Oligopeptidase A, zinc metalloprotease; involved in the degradation of cleaved si... EG11441 - oligopeptidase A / Oligopeptidase A, zinc metalloprotease; involved in the degradation of cleaved si... gi\|238902587, gi... - gi\|238902587\|ref\|YP_002928383.1\| oligopeptidase A [Escherichia coli BW2952], gi\|238861932\|gb\|ACR6393... gi\|226839176, gi... - gi\|254038670\|ref\|ZP_04872726.1\| oligopeptidase A [Escherichia sp. 1_1_43], gi\|226839176\|gb\|EEH71199.... gi\|89110515, gi\|... - gi\|89110515\|ref\|AP_004295.1\| oligopeptidase A [Escherichia coli str. K-12 substr. W3110], gi\|8567654... gi\|170018272, gi... - gi\|170018272\|ref\|YP_001723226.1\| oligopeptidase A [Escherichia coli ATCC 8739], gi\|169753200\|gb\|ACA7... gi\|75516039, gi\|... - gi\|75516039\|ref\|ZP_00738157.1\| COG0339: Zn-dependent oligopeptidases [Escherichia coli 53638], gi\|18... gi\|75260213, gi\|... - gi\|75260213\|ref\|ZP_00731481.1\| COG0339: Zn-dependent oligopeptidases [Escherichia coli E22], gi\|1930... gi\|170684269, gi... - gi\|170684269\|ref\|YP_001745753.1\| oligopeptidase A [Escherichia coli SMS-3-5], gi\|170521987\|gb\|ACB201... gi\|194414962, gi... - gi\|75211865\|ref\|ZP_00711929.1\| COG0339: Zn-dependent oligopeptidases [Escherichia coli B171], gi\|194... gi\|170083009, gi... - gi\|170083009\|ref\|YP_001732329.1\| oligopeptidase A [Escherichia coli str. K-12 substr. DH10B], gi\|169... OPDA_ECOLI - Oligopeptidase A (EC 3.4.24.70) - Escherichia coli gi\|157162974, gi... - gi\|75197419\|ref\|ZP_00707489.1\| COG0339: Zn-dependent oligopeptidases [Escherichia coli HS], gi\|15716... gi\|218702251, gi... - gi\|218702251\|ref\|YP_002409880.1\| oligopeptidase A [Escherichia coli IAI39], gi\|218372237\|emb\|CAR2009... gi\|209914213, gi... - gi\|209920954\|ref\|YP_002295038.1\| oligopeptidase A [Escherichia coli SE11], gi\|209914213\|dbj\|BAG79287...	0.0	[24..711]	[1..679]
gi\|209396642, gi... - gi\|209396642\|ref\|YP_002272964.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4115], gi\|2091580... gi\|217325564, gi... - gi\|217325564\|ref\|ZP_03441648.1\| oligopeptidase A [Escherichia coli O157:H7 str. TW14588], gi\|2173217... gi\|195935016 - gi\|195935016\|ref\|ZP_03080398.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4024] gi\|208808077, gi... - gi\|208808077\|ref\|ZP_03250414.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4206], gi\|20872787... gi\|208813633, gi... - gi\|208813633\|ref\|ZP_03254962.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4045], gi\|20873491... gi\|208739743, gi... - gi\|208819620\|ref\|ZP_03259940.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4042], gi\|20873974... gi\|168772565, gi... - gi\|187771638\|gb\|EDU35482.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4196], gi\|168772565\|re... gi\|168779626, gi... - gi\|189002260\|gb\|EDU71246.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4076], gi\|168779626\|re... gi\|189374592, gi... - gi\|189374592\|gb\|EDU93008.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC869], gi\|168785348\|ref... gi\|189379996, gi... - gi\|189379996\|gb\|EDU98412.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC508], gi\|168797313\|ref... gi\|168746980, gi... - gi\|188018294\|gb\|EDU56416.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4113], gi\|168746980\|re... gi\|189359131, gi... - gi\|189359131\|gb\|EDU77550.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4401], gi\|168753295\|re... gi\|13363844, gi\|... - gi\|15833624\|ref\|NP_312397.1\| oligopeptidase A [Escherichia coli O157:H7 str. Sakai], gi\|13363844\|dbj... gi\|189369485, gi... - gi\|189369485\|gb\|EDU87901.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4501], gi\|168759566\|re... gi\|168765890, gi... - gi\|189364810\|gb\|EDU83229.1\| oligopeptidase A [Escherichia coli O157:H7 str. EC4486], gi\|168765890\|re... gi\|13363844, gi\|... - gi\|15833624\|ref\|NP_312397.1\| oligopeptidase A [Escherichia coli O157:H7], gi\|13363844\|dbj\|BAB37793.1... gi\|254795441, gi... - gi\|254795441\|ref\|YP_003080278.1\| oligopeptidase A [Escherichia coli O157:H7 str. TW14359], gi\|254594... gi\|25319707, gi\|... - pir\|\|B91175 oligopeptidase A [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952)... gi\|15804033, gi\|... - gi\|15804033\|ref\|NP_290069.1\| oligopeptidase A [Escherichia coli O157:H7 EDL933], gi\|12518192\|gb\|AAG5...	0.0	[24..711]	[1..679]
gi\|194455090, gi... - gi\|194468726\|ref\|ZP_03074710.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Kentuc... gi\|194449661, gi... - gi\|194449661\|ref\|YP_002047620.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Heide... gi\|168241749, gi... - gi\|205338757\|gb\|EDZ25521.1\| peptidase family M3 [Salmonella enterica subsp. enterica serovar Heidelb... gi\|168235191, gi... - gi\|197291259\|gb\|EDY30611.1\| peptidase family M3 [Salmonella enterica subsp. enterica serovar Schwarz... gi\|205354788, gi... - gi\|205354788\|ref\|YP_002228589.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Galli... gi\|200386491, gi... - gi\|200386491\|ref\|ZP_03213103.1\| peptidase family M3 [Salmonella enterica subsp. enterica serovar Vir... gi\|198246092, gi... - gi\|198246092\|ref\|YP_002217553.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Dubli... gi\|194734493, gi... - gi\|194734493\|ref\|YP_002116530.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Schwa... OPDA_SALTY - Oligopeptidase A OS=Salmonella typhimurium GN=prlC PE=1 SV=1 gi\|205333223, gi... - gi\|205333223\|gb\|EDZ19987.1\| peptidase family M3 [Salmonella enterica subsp. enterica serovar Kentuck... gi\|205330668, gi... - gi\|205330668\|gb\|EDZ17432.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar 4,[5],12:i... gi\|167549185, gi... - gi\|205325717\|gb\|EDZ13556.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Saintpaul ... gi\|161366009, gi... - gi\|161616645\|ref\|YP_001590610.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Parat... gi\|238910378 - gi\|238910378\|ref\|ZP_04654215.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Tennes... lcl\|NC_016856.1_... - [gene=prlC] [protein=oligopeptidase A] [protein_id=YP_005239807.1] [location=complement(3777641..377... OPDA_SALTY - Oligopeptidase A OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=prlC PE=1 SV=1 OPDA_SALTY - Oligopeptidase A OS=Salmonella typhimurium GN=prlC PE=1 SV=1	0.0	[24..711]	[1..679]
gi\|213053405 - gi\|213053405\|ref\|ZP_03346283.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Typhi ... gi\|213425056 - gi\|213425056\|ref\|ZP_03357806.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Typhi ... gi\|213999891 - gi\|213999891\|ref\|ZP_03410626.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Typhi ... gi\|16762706 - gi\|16762706\|ref\|NP_458323.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Typhi str... gi\|16505012, gi\|... - gi\|25319699\|pir\|\|AB0988 oligopeptidase A (EC 3.4.24.70) [imported] - Salmonella enterica subsp. ente... gi\|29144193, gi\|... - gi\|29144193\|ref\|NP_807535.1\| oligopeptidase A [Salmonella enterica subsp. enterica serovar Typhi str...	0.0	[24..711]	[1..679]
gi\|451277 - gi\|451277\|gb\|AAA16155.1\| oligopeptidase A [Escherichia coli]	0.0	[24..711]	[1..679]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[24..711]	[1..679]
gi\|165915120, gi... - gi\|89105112\|ref\|ZP_01177638.1\| COG0339: Zn-dependent oligopeptidases [Yersinia pestis biovar Orienta... gi\|229691095, gi... - gi\|229841756\|ref\|ZP_04461912.1\| oligopeptidase A [Yersinia pestis biovar Orientalis str. India 195],... gi\|108781706, gi... - gi\|108809793\|ref\|YP_653709.1\| oligopeptidase A [Yersinia pestis Antiqua], gi\|108781706\|gb\|ABG15764.1... gi\|229696039, gi... - gi\|229839673\|ref\|ZP_04459832.1\| oligopeptidase A [Yersinia pestis biovar Orientalis str. PEXU2], gi\|... gi\|229678412, gi... - gi\|229904294\|ref\|ZP_04519405.1\| oligopeptidase A [Yersinia pestis Nepal516], gi\|229678412\|gb\|EEO7451... gi\|229706515, gi... - gi\|229836447\|ref\|ZP_04456614.1\| oligopeptidase A [Yersinia pestis Pestoides A], gi\|229706515\|gb\|EEO9... gi\|162353098, gi... - gi\|77635480\|ref\|ZP_00797564.1\| COG0339: Zn-dependent oligopeptidases [Yersinia pestis Angola], gi\|16... gi\|165926985, gi... - gi\|165926985\|ref\|ZP_02222817.1\| oligopeptidase A [Yersinia pestis biovar Orientalis str. F1991016], ... gi\|166009704, gi... - gi\|166009704\|ref\|ZP_02230602.1\| oligopeptidase A [Yersinia pestis biovar Antiqua str. E1979001], gi\|... gi\|166205336, gi... - gi\|166213395\|ref\|ZP_02239430.1\| oligopeptidase A [Yersinia pestis biovar Antiqua str. B42003004], gi... gi\|150261069, gi... - gi\|150261069\|ref\|ZP_01917797.1\| oligopeptidase A [Yersinia pestis CA88-4125], gi\|149290477\|gb\|EDM405... gi\|167400663, gi... - gi\|167400663\|ref\|ZP_02306172.1\| oligopeptidase A [Yersinia pestis biovar Antiqua str. UG05-0454], gi... gi\|167420890, gi... - gi\|167420890\|ref\|ZP_02312643.1\| oligopeptidase A [Yersinia pestis biovar Orientalis str. MG05-1020],... gi\|167426620, gi... - gi\|167426620\|ref\|ZP_02318373.1\| oligopeptidase A [Yersinia pestis biovar Mediaevalis str. K1973002],... gi\|145212287, gi... - gi\|145600591\|ref\|YP_001164667.1\| oligopeptidase A [Yersinia pestis Pestoides F], gi\|145212287\|gb\|ABP... gi\|21960848, gi\|... - gi\|22127726\|ref\|NP_671149.1\| oligopeptidase A [Yersinia pestis KIM], gi\|21960848\|gb\|AAM87400.1\|AE013... gi\|25319701 - pir\|\|AH0483 oligopeptidase A (EC 3.4.24.70) [imported] - Yersinia pestis (strain CO92) gi\|15981883, gi\|... - gi\|218930970\|ref\|YP_002348845.1\| oligopeptidase A [Yersinia pestis CO92], gi\|16124102\|ref\|NP_407415.... gi\|45443086, gi\|... - gi\|45443086\|ref\|NP_994625.1\| oligopeptidase A [Yersinia pestis biovar Microtus str. 91001], gi\|45437...	0.0	[24..711]	[1..679]
gi\|15602545, gi\|... - gi\|15602545\|ref\|NP_245617.1\| PrlC [Pasteurella multocida subsp. multocida str. Pm70], gi\|12720961\|gb...	0.0	[38..712]	[10..679]
gi\|153818548, gi... - gi\|153818548\|ref\|ZP_01971215.1\| oligopeptidase A [Vibrio cholerae NCTC 8457], gi\|126510887\|gb\|EAZ734... gi\|153821596, gi... - gi\|153821596\|ref\|ZP_01974263.1\| oligopeptidase A [Vibrio cholerae B33], gi\|126520883\|gb\|EAZ78106.1\| ... gi\|254847022, gi... - gi\|75830234\|ref\|ZP_00759516.1\| COG0339: Zn-dependent oligopeptidases [Vibrio cholerae MO10], gi\|2548... gi\|15640218, gi\|... - gi\|9654593\|gb\|AAF93364.1\| oligopeptidase A [Vibrio cholerae O1 biovar El Tor str. N16961], gi\|156402... gi\|11355739 - pir\|\|C82353 oligopeptidase A VC0188 [imported] - Vibrio cholerae (strain N16961 serogroup O1)	0.0	[37..711]	[9..679]
gi\|7288240 - gi\|7288240\|gb\|AAF45039.1\| putative oligopeptidase A [Aeromonas hydrophila]	0.0	[24..711]	[1..679]

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Predicted Domain #1

Region A:
Residues: [1-42]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRLLLCKNWF ASPVISPLLY TRSLYSMANT TSFPIAPQAP PN

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [372-573]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NVDLEKISEY FPLEATITGM LEIYETLFNL KFIETKDSQN KSVWHDDVKQ IAVWNMDDPK  60
   61 SPNFVGWIYF DLHPRDGKYG HAANFGLSSS FMIDDTTRSY PVTALVCNFS KSTKDKPSLL 120
  121 KHNEIVTFFH ELGHGIHDLV GQNKESRFNG PGSVPWDFVE APSQMLEFWT WNKNELINLS 180
  181 SHYKTGEKIP ESLINSLIKT KH

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [646-712]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YLWAEVFATD MYHTKFAKDP LNAKNGIQYR DIVLARGGLY DINDNLKEFL GREPSKDAFL  60
   61 KELGLQN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2130.0
Match:	1i1iP_
Description:	Neurolysin (endopeptidase 24.16)
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [43-371]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WSFTPSDISG KTNEIINNSN NFYDSMSKVE SPSVSNFVEP FMKFENELGP IINQLTFLQH  60
   61 VSSDKEIRDA SVNSSMKLDE LNIDLSLRHD IFLQFARVWQ DVQSKADSVE RETFKYVEKS 120
  121 YKDYIHSGLE LDEGNRLKIK EIKKKISVNS INFSKNLGEQ KEYITFTKEQ LEGVPDSILT 180
  181 QFETIKSDKD SNETLYKVTF KYPDIFPVMK LASSAQTRKQ AFLADQNKVP ENEAILLDTL 240
  241 KLRDELASLL GYDTYANYNL YDKMAEDSTT VMNFLNDLKD KLIPLGRKEL QVLQDMKAED 300
  301 VKKLNQGADP NYYIWDHRYY DNKYLLENF

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [574-645]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VNGALFTLRQ LHFGLFDMKV HTCKDLQNLS ICDTWNQLRQ DISLISNGGT LSKGYDSFGH  60
   61 IMSDSYSAGY YG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2130.0
Match:	1i1iP_
Description:	Neurolysin (endopeptidase 24.16)
Matching Structure (courtesy of the PDB):

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