YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|25284839
Organism:	Yersinia pestis
Length:	1323 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 gi|25284839.

Description	E-value	Query Range	Subject Range
gi\|91210106, gi\|... - gi\|91210106\|ref\|YP_540092.1\| delta-1-pyrroline-5-carboxylate dehydrogenase [Escherichia coli UTI89],...	0.0	[1..1323]	[23..1342]
gi\|26247036, gi\|... - gi\|26247036\|ref\|NP_753076.1\| Delta-1-pyrroline-5-carboxylate dehydrogenase [Escherichia coli CFT073]...	0.0	[1..1323]	[23..1342]
gi\|191172422, gi... - gi\|75240621\|ref\|ZP_00724538.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c... gi\|110641197, gi... - gi\|110641197\|ref\|YP_668927.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrrolin...	0.0	[1..1323]	[1..1320]
EG10801 - fused DNA-binding transcriptional regulator /proline dehydrogenase /pyrroline-5-carboxylate dehydrogen... gi\|238861187, gi... - gi\|238900274\|ref\|YP_002926070.1\| fused DNA-binding transcriptional regulator/proline dehydrogenase/p... EG10801 - fused DNA-binding transcriptional regulator /proline dehydrogenase /pyrroline-5-carboxylate dehydrogen... gi\|170080673, gi... - gi\|170080673\|ref\|YP_001729993.1\| multifunctional proline dehydrogenase, delta-1-pyrroline-5-carboxyl... gi\|89107865, gi\|... - gi\|89107865\|ref\|AP_001645.1\| fused DNA-binding transcriptional regulator, proline dehydrogenase, and... PUTA_ECOLI - Bifunctional protein putA [Includes: Proline dehydrogenase (EC 1.5.99.8) (Proline oxidase); Delta-1-...	0.0	[1..1323]	[1..1320]
gi\|117623210, gi... - gi\|117623210\|ref\|YP_852123.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrrolin... gi\|162138454 - gi\|162138454\|ref\|YP_540092.2\| trifunctional transcriptional regulator/proline dehydrogenase/pyrrolin... gi\|218557904, gi... - gi\|218557904\|ref\|YP_002390817.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrro...	0.0	[1..1323]	[1..1320]
gi\|468875 - gi\|468875\|gb\|AAB59985.1\| PutA [Escherichia coli]	0.0	[1..1323]	[1..1320]
gi\|157080704, gi... - gi\|75190078\|ref\|ZP_00703345.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c...	0.0	[1..1323]	[1..1320]
gi\|15830514, gi\|... - gi\|15830514\|ref\|NP_309287.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrroline... gi\|25284836 - pir\|\|D90786 proline dehydrogenase [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509... gi\|15830514, gi\|... - gi\|15830514\|ref\|NP_309287.1\| proline dehydrogenase [Escherichia coli O157:H7], gi\|13360720\|dbj\|BAB34...	0.0	[1..1323]	[1..1320]
gi\|218694550, gi... - gi\|218694550\|ref\|YP_002402217.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrro... gi\|193070799, gi... - gi\|75234353\|ref\|ZP_00718723.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c...	0.0	[1..1323]	[1..1320]
gi\|238723597, gi... - gi\|77975687\|ref\|ZP_00831221.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Yersinia fred...	0.0	[1..1323]	[1..1323]

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Predicted Domain #1

Region A:
Residues: [1-651]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MANTTMGVKL DEATRDRIKS AAQRIDRTPH WLIKQAIFNY LEKLESNSEL PELATTSSLS  60
   61 LQDTEDAIPQ LTENTHQPFL DFAEHVLPQS VTRAAITAAY RRPETEAIPM LLEQARLPAD 120
  121 LAQATHKLAY SIAEKLRNQK SAHGRAGMVQ GLLQEFSLSS QEGVALMCLA EALLRIPDKP 180
  181 TRDALIRDKI SNGNWHSHLG RSPSMFVNAA TWGLLFTGRL VSTHNEAKLS GSLNRIIGKG 240
  241 GEPLIRKGVD MAMRLMGEQF VTGETISEAL ANARKLEDKG FRYSYDMLGE AALTEADAQA 300
  301 YLLSYQQAIH AIGKASNGRG IYEGPGISIK LSALHPRYSR AQYERVMDEL YPRLLSLTLQ 360
  361 ARQYDIGINI DAEEADRLEI SLDLLERLCF EPQLAGWNGI GFVIQAYQKR CPSTIDAVID 420
  421 MAQRSRRRLM IRLVKGAYWD SEIKRAQIDG LEGYPVYTRK VYTDVSYLAC ARKLLAVPNL 480
  481 IYPQFATHNA HTLSAIYHLA GQNYYPGQYE FQCLHGMGEP LYEQVVGKVA EGKLNRPCRI 540
  541 YAPVGTHETL LAYLVRRLLE NGANTSFVNR IADATLPLDE LVADPVSAVE AMAAAEGQLG 600
  601 LPHPRIPLPR ELFGKDRANS SGVDLANEHR LASLSSALLA SASQVWRAEP V

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1k87A
Description:	N-terminal domain of bifunctional PutA protein; Proline dehydrohenase domain of bifunctional PutA protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on the CH-NH group of donors	6.88732579226533	bayes_pls_golite062009
1-pyrroline-5-carboxylate dehydrogenase activity	5.85999181868044	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	5.85251457886657	bayes_pls_golite062009
oxidoreductase activity	3.26500423104107	bayes_pls_golite062009
catalytic activity	2.15527229494088	bayes_pls_golite062009
binding	1.75614413431284	bayes_pls_golite062009
methylenetetrahydrofolate reductase (NADPH) activity	1.53575450131902	bayes_pls_golite062009
protein binding	1.38007868564575	bayes_pls_golite062009
transcription regulator activity	0.577994923694075	bayes_pls_golite062009
nucleic acid binding	0.464400793583132	bayes_pls_golite062009
DNA binding	0.359090400165996	bayes_pls_golite062009
transcription repressor activity	0.0464200104039556	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [652-1124]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IDAEQDNGDA LPVINPAEPA DVVGYVREAT EGEVSRALDA AARAGAIWFA TPPAERAAIL  60
   61 IRAAELMENQ MQTLMGILVR EAGKTFSNAI AEVREAVDFL HYYAGIVRDN FANDSHRPLG 120
  121 PVVCISPWNF PLAIFTGQVA AALAAGNSVL AKPAEQTPLI AAQAVRILLD AGIPQGVLQL 180
  181 LPGRGDSVGA LLVNDARVRA VMFTGSTEVA TILQRSIAGR LDPQGRPTPL IAETGGLNAM 240
  241 IVDSSALTEQ VVTDVVASAF DSAGQRCSAL RILCIQDDVA EHTLQMLRGA MAECRMGNPE 300
  301 RLSTDIGPVI DAEAKTGIER HIQAMRAKGR KVYQAARTNS LDEKEWQRGT FIKPTLIELD 360
  361 SFDELQKEVF GPVLHVVRFQ RQHLNELVDQ INASGYGLTL GIHTRIDETI ARVTEKAKVG 420
  421 NLYVNRNMVG AVVGVQPFGG EGLSGTGPKA GGPLYLYRLL SSRPDDALAN TLA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	150.0
Match:	1cw3A
Description:	Aldehyde reductase (dehydrogenase), ALDH
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity	4.47226217021998	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	4.34495776828926	bayes_pls_golite062009
methylmalonate-semialdehyde dehydrogenase (acylating) activity	3.87605237828483	bayes_pls_golite062009
succinate-semialdehyde dehydrogenase [NAD(P)+] activity	3.64672165191647	bayes_pls_golite062009
1-pyrroline-5-carboxylate dehydrogenase activity	3.52624358965579	bayes_pls_golite062009
3-chloroallyl aldehyde dehydrogenase activity	3.37049090049734	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	3.2867555127991	bayes_pls_golite062009
benzaldehyde dehydrogenase activity	2.99564252244797	bayes_pls_golite062009
aldehyde dehydrogenase (NAD) activity	2.81851373615334	bayes_pls_golite062009
catalytic activity	2.80804701752928	bayes_pls_golite062009
glutamate-5-semialdehyde dehydrogenase activity	2.78416888468693	bayes_pls_golite062009
succinate-semialdehyde dehydrogenase activity	2.71501590413507	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors	2.70230501280821	bayes_pls_golite062009
aldehyde dehydrogenase [NAD(P)+] activity	2.43250909158896	bayes_pls_golite062009
malonate-semialdehyde dehydrogenase (acetylating) activity	1.75951883819887	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	1.6559690223037	bayes_pls_golite062009
retinal dehydrogenase activity	1.42867174920845	bayes_pls_golite062009
binding	1.06673666884196	bayes_pls_golite062009
protein binding	0.894945263794726	bayes_pls_golite062009
histidinol dehydrogenase activity	0.258030369394064	bayes_pls_golite062009
benzaldehyde dehydrogenase (NAD+) activity	0.23487570676521	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [1125-1323]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HQDGEQQQNV AGREALLTAH RAFTQWATEQ QHDSLATLCQ RYASLAQGGT VRLLPGPTGE  60
   61 RNTYALLPRE RVLCLADTES DTLTQLAAVL ATGSQVLWPE NDVQKALLPQ LPTEVQSRIT 120
  121 LTHDWQTANI TFDAVIYHGD ADQLRTLCEQ VAQIDGPIVS VQGFARGETN ILLERLLIEH 180
  181 SLSVNTAAAG GNASLMTIG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.9
Match:	1uzbA
Description:	1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE
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

Predicted functions:

Predicted functions: