YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|218553006, gi...
Organism:	Escherichia coli IAI1
Length:	784 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|218553006, gi....

Description	E-value	Query Range	Subject Range
gi\|304908 - gi\|304908\|gb\|AAA16837.1\| ATP-dependent protease [Escherichia coli str. K-12 substr. W3110] gi\|304908 - gi\|304908\|gb\|AAA16837.1\| ATP-dependent protease	641.0	[0..1]	[784..1]
gi\|146644 - gi\|146644\|gb\|AAA24079.1\| ATP-dependent proteinase (lon) [Escherichia coli]	636.0	[0..1]	[777..1]
gi\|187427314, gi... - gi\|75177623\|ref\|ZP_00697704.1\| COG0466: ATP-dependent Lon protease, bacterial type [Shigella boydii ... gi\|82542927, gi\|... - gi\|82542927\|ref\|YP_406874.1\| DNA-binding ATP-dependent protease La [Shigella boydii Sb227], gi\|81244...	636.0	[0..1]	[784..1]
gi\|50120089, gi\|... - gi\|50120089\|ref\|YP_049256.1\| DNA-binding ATP-dependent protease La [Pectobacterium atrosepticum SCRI...	636.0	[0..1]	[781..1]
gi\|213852301 - gi\|213852301\|ref\|ZP_03381833.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. en... gi\|29142798, gi\|... - gi\|29142798\|ref\|NP_806140.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. enter... gi\|16759430 - gi\|16759430\|ref\|NP_455047.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. enter... gi\|197094791, gi... - gi\|197363314\|ref\|YP_002142951.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. e... gi\|213160792 - gi\|213160792\|ref\|ZP_03346502.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. en... gi\|56128651, gi\|... - gi\|56414394\|ref\|YP_151469.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. enter... gi\|16501721, gi\|... - gi\|25289976\|pir\|\|AE0558 Lon protease [imported] - Salmonella enterica subsp. enterica serovar Typhi ...	634.0	[0..1]	[784..1]
gi\|207855930, gi... - gi\|207855930\|ref\|YP_002242581.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. e... gi\|224466815, gi... - gi\|224582288\|ref\|YP_002636086.1\| Lon protease [Salmonella enterica subsp. enterica serovar Paratyphi... gi\|16418957, gi\|... - gi\|16763831\|ref\|NP_459446.1\| DNA-binding ATP-dependent protease La [Salmonella typhimurium LT2], gi\|... gi\|204930547, gi... - gi\|204930547\|ref\|ZP_03221477.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serov... gi\|238911419 - gi\|238911419\|ref\|ZP_04655256.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. en... gi\|205351761, gi... - gi\|205351761\|ref\|YP_002225562.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. e... gi\|198244399, gi... - gi\|198244399\|ref\|YP_002214404.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica sero... gi\|199601867, gi... - gi\|200389422\|ref\|ZP_03216033.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serov... gi\|197212263, gi... - gi\|197248560\|ref\|YP_002145431.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica sero... gi\|197264938, gi... - gi\|197264938\|ref\|ZP_03165012.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serov... gi\|194456566, gi... - gi\|194470202\|ref\|ZP_03076186.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serov... gi\|194735362, gi... - gi\|194735362\|ref\|YP_002113481.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica sero... gi\|168818938, gi... - gi\|205343953\|gb\|EDZ30717.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar W... gi\|194450573, gi... - gi\|194450573\|ref\|YP_002044485.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. e... gi\|205349766, gi... - gi\|205349766\|gb\|EDZ36397.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar H... gi\|168465544, gi... - gi\|195631706\|gb\|EDX50226.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar N... gi\|197289469, gi... - gi\|197289469\|gb\|EDY28832.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar S... gi\|205340013, gi... - gi\|205340013\|gb\|EDZ26777.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar H... gi\|205330861, gi... - gi\|205330861\|gb\|EDZ17625.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar 4... gi\|168231439, gi... - gi\|205334095\|gb\|EDZ20859.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar K... gi\|161364719, gi... - gi\|161615355\|ref\|YP_001589320.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. e... gi\|62179062, gi\|... - gi\|62179062\|ref\|YP_215479.1\| DNA-binding ATP-dependent protease La [Salmonella enterica subsp. enter... gi\|205323385, gi... - gi\|205323385\|gb\|EDZ11224.1\| ATP-dependent protease La [Salmonella enterica subsp. enterica serovar S... lcl\|NC_016856.1_... - [gene=lon] [protein=DNA-binding ATP-dependent protease La] [protein_id=YP_005236147.1] [location=506...	634.0	[0..1]	[784..1]
gi\|124498426, gi... - gi\|124531648\|ref\|ZP_01701836.1\| ATP-dependent protease La [Escherichia coli B], gi\|124498426\|gb\|EAY4... gi\|91209513, gi\|... - gi\|91209513\|ref\|YP_539499.1\| DNA-binding ATP-dependent protease La [Escherichia coli UTI89], gi\|9107... gi\|26246450, gi\|... - gi\|26246450\|ref\|NP_752489.1\| DNA-binding ATP-dependent protease La [Escherichia coli CFT073], gi\|261... gi\|227838636, gi... - gi\|227884550\|ref\|ZP_04002355.1\| DNA-binding ATP-dependent protease La [Escherichia coli 83972], gi\|2... gi\|209743834, gi... - gi\|209743840\|gb\|ACI70227.1\| endopeptidase La [Escherichia coli], gi\|209743834\|gb\|ACI70224.1\| endopep... gi\|237707566, gi... - gi\|237707566\|ref\|ZP_04538047.1\| DNA-binding ATP-dependent protease La [Escherichia sp. 3_2_53FAA], g...	634.0	[0..1]	[784..16]
gi\|189362422, gi... - gi\|189362422\|gb\|EDU80841.1\| ATP-dependent protease La [Escherichia coli O157:H7 str. EC4486], gi\|168... gi\|25289966 - pir\|\|E90690 endopeptidase La [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952) gi\|195940566 - gi\|195940566\|ref\|ZP_03085948.1\| DNA-binding ATP-dependent protease La [Escherichia coli O157:H7 str.... gi\|13359950, gi\|... - gi\|15829747\|ref\|NP_308520.1\| DNA-binding ATP-dependent protease La [Escherichia coli O157:H7 str. Sa... gi\|254791623, gi... - gi\|254791623\|ref\|YP_003076460.1\| DNA-binding ATP-dependent protease La [Escherichia coli O157:H7 str... gi\|13359950, gi\|... - gi\|15829747\|ref\|NP_308520.1\| endopeptidase La [Escherichia coli O157:H7], gi\|13359950\|dbj\|BAB33916.1... gi\|168754544, gi... - gi\|189357958\|gb\|EDU76377.1\| ATP-dependent protease La [Escherichia coli O157:H7 str. EC4401], gi\|168... gi\|189369044, gi... - gi\|189369044\|gb\|EDU87460.1\| ATP-dependent protease La [Escherichia coli O157:H7 str. EC4501], gi\|168...	633.0	[0..1]	[784..1]
gi\|117622699, gi... - gi\|117622699\|ref\|YP_851612.1\| DNA-binding ATP-dependent protease La [Escherichia coli APEC O1], gi\|1...	633.0	[0..1]	[784..16]
gi\|30040185, gi\|... - gi\|30061941\|ref\|NP_836112.1\| DNA-binding ATP-dependent protease La [Shigella flexneri 2a str. 2457T]... gi\|110614015, gi... - gi\|110804467\|ref\|YP_687987.1\| DNA-binding ATP-dependent protease La [Shigella flexneri 5 str. 8401],... gi\|56383210, gi\|... - gi\|56479659\|ref\|NP_706333.2\| DNA-binding ATP-dependent protease La [Shigella flexneri 2a str. 301], ...	632.0	[0..1]	[784..1]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNPERSERIE IPVLPLRDVV VYPHMVIPLF VGREKSIRCL EAAMDHDKKI MLVAQKEAST  60
   61 DEPGVNDLFT VGTVASILQM LKLPDGTVKV LVEGLQRARI SALSDNGEHF SAKAEYLES

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	35.221849
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	0.679730538301274	bayes_pls_golite062009
protein binding	0.3997153647519	bayes_pls_golite062009
catalytic activity	0.147263815852997	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [120-203]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PTIDEREQEV LVRTAISQFE GYIKLNKKIP PEVLTSLNSI DDPARLADTI AAHMPLKLAD  60
   61 KQSVLEMSDV NERLEYLMAM MESE

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.93
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 functions:

Term	Confidence	Notes
binding	0.447741978121551	bayes_pls_golite062009
catalytic activity	0.174240748624544	bayes_pls_golite062009
protein binding	0.134860723832737	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [204-306]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IDLLQVEKRI RNRVKKQMEK SQREYYLNEQ MKAIQKELGE MDDAPDENEA LKRKIDAAKM  60
   61 PKEAKEKAEA ELQKLKMMSP MSAEATVVRG YIDWMVQVPW NAR

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.94
Match:	1us7B
Description:	Complex of Hsp90 and P50
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.910427157976578	bayes_pls_golite062009
protein binding	0.666389745132759	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [307-492]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SKVKKDLRQA QEILDTDHYG LERVKDRILE YLAVQSRVNK IKGPILCLVG PPGVGKTSLG  60
   61 QSIAKATGRK YVRMALGGVR DEAEIRGHRR TYIGSMPGKL IQKMAKVGVK NPLFLLDEID 120
  121 KMSSDMRGDP ASALLEVLDP EQNVAFSDHY LEVDYDLSDV MFVATSNSMN IPAPLLDRME 180
  181 VIRLSG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.154902
Match:	2qp9X
Description:	No description for 2qp9X was found.

Predicted Domain #5

Region A:
Residues: [493-607]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YTEDEKLNIA KRHLLPKQIE RNALKKGELT VDDSAIIGII RYYTREAGVR GLEREISKLC  60
   61 RKAVKQLLLD KSLKHIEING DNLHDYLGVQ RFDYGRADNE NRVGQVTGLA WTEVG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	5.2
Match:	1x37A
Description:	Structure of Bacillus subtilis Lon protease SSD domain
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [608-784]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDLLTIETAC VPGKGKLTYT GSLGEVMQES IQAALTVVRA RAEKLGINPD FYEKRDIHVH  60
   61 VPEGATPKDG PSAGIAMCTA LVSCLTGNPV RADVAMTGEI TLRGQVLPIG GLKEKLLAAH 120
  121 RGGIKTVLIP FENKRDLEEI PDNVIADLDI HPVKRIEEVL TLALQNEPSG MQVVTAK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.154902
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
binding	0.423668529068616	bayes_pls_golite062009
structural molecule activity	0.278122898090466	bayes_pls_golite062009
ribonuclease activity	0.214389253755211	bayes_pls_golite062009
protein binding	0.214066724623027	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:

Predicted functions: