YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373362, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	785 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|24373362, gi|....

Description	E-value	Query Range	Subject Range
gi\|238720659, gi... - gi\|77962324\|ref\|ZP_00826145.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia mollare...	581.0	[0..1]	[781..1]
gi\|77956935, gi\|... - gi\|77956935\|ref\|ZP_00821007.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia bercovi...	580.0	[0..1]	[781..1]
gi\|238723958, gi... - gi\|77974301\|ref\|ZP_00829842.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia frederi... gi\|122090301, gi... - gi\|123443340\|ref\|YP_001007314.1\| DNA-binding ATP-dependent protease La [Yersinia enterocolitica subs...	580.0	[0..1]	[781..1]
gi\|146644 - gi\|146644\|gb\|AAA24079.1\| ATP-dependent proteinase (lon) [Escherichia coli]	580.0	[0..1]	[775..1]
gi\|91715847, gi\|... - gi\|91793845\|ref\|YP_563496.1\| ATP-dependent protease La [Shewanella denitrificans OS217], gi\|91715847...	580.0	[0..1]	[783..1]
gi\|229681258, gi... - gi\|229901329\|ref\|ZP_04516451.1\| DNA-binding ATP-dependent protease La [Yersinia pestis Nepal516], gi... gi\|229687729, gi... - gi\|229899327\|ref\|ZP_04514470.1\| DNA-binding ATP-dependent protease La [Yersinia pestis biovar Orient... gi\|229896087, gi... - gi\|229896087\|ref\|ZP_04511257.1\| DNA-binding ATP-dependent protease La [Yersinia pestis Pestoides A],... gi\|229838759, gi... - gi\|229838759\|ref\|ZP_04458918.1\| DNA-binding ATP-dependent protease La [Yersinia pestis biovar Orient... Q66DT2\|Q66DT2_YERPS - DNA-binding, ATP-dependent protease la; cleaves RcsA and SulA, heat shock k-protein - Yersinia pseud... gi\|152958955, gi... - gi\|77631929\|ref\|ZP_00794515.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia pseudot... gi\|167399401, gi... - gi\|167399401\|ref\|ZP_02304925.1\| ATP-dependent protease La [Yersinia pestis biovar Antiqua str. UG05-... gi\|166960460, gi... - gi\|167421541\|ref\|ZP_02313294.1\| ATP-dependent protease La [Yersinia pestis biovar Orientalis str. MG... gi\|167423644, gi... - gi\|167423644\|ref\|ZP_02315397.1\| ATP-dependent protease La [Yersinia pestis biovar Mediaevalis str. K... gi\|149291412, gi... - gi\|149364999\|ref\|ZP_01887034.1\| ATP-dependent protease La [Yersinia pestis CA88-4125], gi\|149291412\|... gi\|186697354, gi... - gi\|186894328\|ref\|YP_001871440.1\| DNA-binding ATP-dependent protease La [Yersinia pseudotuberculosis ... gi\|89103163, gi\|... - gi\|89103163\|ref\|ZP_01175753.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia pestis ... gi\|51588593, gi\|... - gi\|51595311\|ref\|YP_069502.1\| DNA-binding ATP-dependent protease La [Yersinia pseudotuberculosis IP 3... gi\|25289977 - pir\|\|AC0383 endopeptidase La (EC 3.4.21.53) [imported] - Yersinia pestis (strain CO92) gi\|165926531, gi... - gi\|165926531\|ref\|ZP_02222363.1\| ATP-dependent protease La [Yersinia pestis biovar Orientalis str. F1... gi\|166010976, gi... - gi\|166010976\|ref\|ZP_02231874.1\| ATP-dependent protease La [Yersinia pestis biovar Antiqua str. E1979... gi\|218930185, gi... - gi\|218930185\|ref\|YP_002348060.1\| DNA-binding ATP-dependent protease La [Yersinia pestis CO92], gi\|16... gi\|166205917, gi... - gi\|166213130\|ref\|ZP_02239165.1\| ATP-dependent protease La [Yersinia pestis biovar Antiqua str. B4200...	580.0	[0..1]	[783..1]
gi\|108808641, gi... - gi\|108808641\|ref\|YP_652557.1\| DNA-binding ATP-dependent protease La [Yersinia pestis Antiqua], gi\|10... gi\|145600050, gi... - gi\|145600050\|ref\|YP_001164126.1\| DNA-binding ATP-dependent protease La [Yersinia pestis Pestoides F]... gi\|22124936, gi\|... - gi\|22124936\|ref\|NP_668359.1\| DNA-binding ATP-dependent protease La [Yersinia pestis KIM], gi\|2195777... gi\|45435482, gi\|... - gi\|45440625\|ref\|NP_992164.1\| DNA-binding ATP-dependent protease La [Yersinia pestis biovar Microtus ... gi\|108774748, gi... - gi\|108811100\|ref\|YP_646867.1\| DNA-binding ATP-dependent protease La [Yersinia pestis Nepal516], gi\|1...	579.0	[0..1]	[783..19]
gi\|68548081, gi\|... - gi\|68548081\|ref\|ZP_00587600.1\| Peptidase S16, ATP-dependent protease La [Shewanella amazonensis SB2B...	579.0	[0..1]	[782..1]
gi\|77635227, gi\|... - gi\|77635227\|ref\|ZP_00797314.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia pestis ...	579.0	[0..1]	[783..1]
gi\|238729049, gi... - gi\|77979389\|ref\|ZP_00834808.1\| COG0466: ATP-dependent Lon protease, bacterial type [Yersinia interme...	579.0	[0..1]	[781..1]

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Predicted Domain #1

Region A:
Residues: [1-127]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTLEREAHIE LPVLPLRDVV VYPHMVIPLF VGREKSIRCL ETAMAQDKQI ILVAQRDAEL  60
   61 DEPTKDDIFE VGTVASILQL LKLPDGTVKV LVEGGRRARI TRYTQEADFF VAKAEYLESE 120
  121 PLEDKEE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.39794
Match:	2aneA
Description:	Crystal structure of N-terminal domain of E.Coli Lon Protease
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.422649754179447	bayes_pls_golite062009
catalytic activity	0.147263815852997	bayes_pls_golite062009
protein binding	0.124422697243688	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [128-212]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EVLVRSAIGQ FEGYIKLNKK IPPEVLTSLS GIDEAARLAD TMAAHMPLKL EDKQSVLEMT  60
   61 NIGERLEYLM AMMESEIDLL QVEKR

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.87
Match:	1zboA
Description:	Crystal Structure of the Hypothetical Protein BPP1347 from Bordetella parapertussis, Northeast Structural Genomics Target BoR27.
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [213-303]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IRTRVKKQME KSQREYYLNE QMKAIQKELG DLDEGHDEFE VLNRKIEEAN MPSDAKEKAV  60
   61 AELNKLRMMS PMSAEATVVR SYVDWMTSVP W

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.86
Match:	1us7B
Description:	Complex of Hsp90 and P50
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [304-653]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SQRSKIKRDL AKAQEVLDTD HYGLEKVKDR ILEYLAVQSR VRQLKGPILC LVGPPGVGKT  60
   61 SLGQSIAKAT GRKYVRVALG GVRDEAEIRG HRRTYIGSMP GKVIQKMAKV GVKNPLFLLD 120
  121 EIDKMSSDMR GDPASALLEV LDPEQNATFN DHYLEVDYDL SDVMFVATSN SMNIPGPLLD 180
  181 RMEVIRLSGY TEDEKLNIAK QHLLTKQIER NGLKASEIKV DDSAIVGIIR YYTREAGVRS 240
  241 LERELSKICR KVVKMILLDK SVKSVTVTAE NLKSFLGVQR FDYGKAESNN QIGQVTGLAW 300
  301 TEVGGDLLTI EATSVPGKGK LTYTGSLGDV MQESIQAAMT VVRARAEQLG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	21.09691
Match:	1hqcA
Description:	Holliday junction helicase RuvB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity	2.18454736627863	bayes_pls_golite062009
binding	1.31163400557981	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
purine nucleotide binding	0.428373955572763	bayes_pls_golite062009
purine ribonucleotide binding	0.424644011903671	bayes_pls_golite062009
ribonucleotide binding	0.424583288440993	bayes_pls_golite062009
nucleotide binding	0.422354428195324	bayes_pls_golite062009
ATP binding	0.04834397972685	bayes_pls_golite062009
adenyl ribonucleotide binding	0.0149501427627318	bayes_pls_golite062009
adenyl nucleotide binding	0.00365326483311895	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [654-785]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 INGDFYEKRD IHVHVPEGAT PKDGPSAGAA MCTALVSSLT GNPVRSDVAM TGEITLRGEV  60
   61 LPIGGLKEKL LAAHRGGIKL VLIPKENERD LEEIPANVIA DLEIRPVRWV DEVLKLALER 120
  121 PVQGFEVVKN LA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	38.221849
Match:	1rr9A
Description:	Catalytic domain of E.coli Lon protease
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity	1.18773479836745	bayes_pls_golite062009
catalytic activity	0.878454819018611	bayes_pls_golite062009
peptidase activity	0.677675533122378	bayes_pls_golite062009
structural constituent of ribosome	0.543314877411748	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	0.444922294492883	bayes_pls_golite062009
structural molecule activity	0.278122898090466	bayes_pls_golite062009
ribonuclease activity	0.214389253755211	bayes_pls_golite062009
binding	0.166587744946789	bayes_pls_golite062009

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:

Predicted functions: