YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|42519186, gi\|...
Organism:	Lactobacillus johnsonii NCC 533
Length:	730 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|42519186, gi|....

Description	E-value	Query Range	Subject Range
gi\|58337744, gi\|... - gi\|58337744\|ref\|YP_194329.1\| PTS enzyme IIABC [Lactobacillus acidophilus NCFM], gi\|58255061\|gb\|AAV43... gi\|227904393, gi... - gi\|227904393\|ref\|ZP_04022198.1\| protein-N(pi)-phosphohistidine--sugar phosphotransferase [Lactobacil...	524.0	[0..3]	[727..2]
gi\|52144365, gi\|... - gi\|52144365\|ref\|YP_082463.1\| PTS system, beta-glucoside-specific enzyme II, ABC component [Bacillus ...	440.0	[0..99]	[718..1]
gi\|15894686, gi\|... - gi\|15894686\|ref\|NP_348035.1\| PTS system, beta-glucosides-specific IIABC component [Clostridium aceto... gi\|25287894 - pir\|\|D97073 PTS system, beta-glucosides-specific IIABC component [imported] - Clostridium acetobutyl...	434.0	[0..99]	[715..1]
gi\|226902786, gi... - gi\|237703522\|ref\|ZP_04534003.1\| beta-glucoside-specific PTS system components IIABC [Escherichia sp.... gi\|91074819, gi\|... - gi\|91213245\|ref\|YP_543231.1\| beta-glucoside-specific PTS system components IIABC [Escherichia coli U...	432.0	[0..93]	[715..18]
gi\|26110892, gi\|... - gi\|26250462\|ref\|NP_756502.1\| beta-glucoside-specific PTS system components IIABC [Escherichia coli C...	432.0	[0..93]	[715..18]
PTV3B_BACHD - PTS system beta-glucoside-specific EIIBCA component OS=Bacillus halodurans (strain ATCC BAA-125 / DS... PTV3B_BACHD, PTB... - PTS system beta-glucoside-specific EIIBCA component OS=Bacillus halodurans GN=bglP PE=3 SV=1, (Q9KF9...	431.0	[0..99]	[716..1]
gi\|49611326, gi\|... - gi\|50120800\|ref\|YP_049967.1\| beta-glucoside-specific PTS system components IIABC [Pectobacterium atr...	431.0	[0..99]	[715..1]
gi\|75210668, gi\|... - gi\|75210668\|ref\|ZP_00710809.1\| COG1263: Phosphotransferase system IIC components, glucose/maltose/N-...	429.0	[0..101]	[715..1]
gi\|45181608 - gi\|45181608\|gb\|AAS55458.1\| BglP [Pectobacterium carotovorum subsp. carotovorum]	429.0	[0..99]	[715..1]

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Predicted Domain #1

Region A:
Residues: [1-86]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNNSYKEVAE KILVAVGGAE NINEVFNCIS RLRFYLKDSK KVNYPKLKLI PAISESEFED  60
   61 GQLQILLGQD VELYYDALVH LLKQKN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.221849
Match:	1o2fB
Description:	Glucose permease domain IIB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.61117010765727	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [87-177]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ISGGEKKMSK VDEKDKKLAE EIVKLVGGKD NVISLVHCAT RLRFKLKDES KADDNAIKQL  60
   61 KGVMGVAHAG GQYQVIIGNN VADVYDQVIP L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	7.522879
Match:	2r48A
Description:	No description for 2r48A was found.

Predicted functions:

Term	Confidence	Notes
protein-N(PI)-phosphohistidine-sugar phosphotransferase activity	5.08041453921791	bayes_pls_golite062009
carbohydrate transmembrane transporter activity	4.49138214292642	bayes_pls_golite062009
glucoside transmembrane transporter activity	1.83892097143526	bayes_pls_golite062009
sugar transmembrane transporter activity	1.77053981674308	bayes_pls_golite062009
transporter activity	1.6837050020547	bayes_pls_golite062009
transmembrane transporter activity	1.5685227361887	bayes_pls_golite062009
substrate-specific transporter activity	1.32293422112884	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.217268678967	bayes_pls_golite062009
active transmembrane transporter activity	1.12964417923438	bayes_pls_golite062009
monosaccharide transmembrane transporter activity	0.71593290802554	bayes_pls_golite062009
beta-glucoside transmembrane transporter activity	0.50967675887857	bayes_pls_golite062009
binding	0.472595683811139	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.37663629577414	bayes_pls_golite062009
fructose transmembrane transporter activity	0.225562559709031	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.0296784994545702	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [178-354]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGLSQDHKEN TNKDKNIVNR FIKLLTTIFT PFLGVLAAAG VLKGFLTLLV VLHVLNTKSG  60
   61 TYLILYAAGD ALFYFLPVMI GFSTARTFKI NEYVGAIIGA ALCYPSLVQA YQMKQSIQFF 120
  121 NIPVILMNYT QTLIPAIIAV WLASILYKFL NNYLPSSLKL IFTPLITLMI AVPLTFL

[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 #4

Region A:
Residues: [355-440]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VVGPATSWAS EELTYSILWI YAHARVVAGF ILAGIWQAVV LLGLHWAFIP IFLNNIATRG  60
   61 FDPIDAMLYC TVFGQTGAAL ALVLKA

[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.

Predicted Domain #5

Region A:
Residues: [441-554]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KDSKFKEIGW PAVISGFLGV TEPIIYGVTL PHKKSFILGS IGSAFGGAIA AFSNAKMFGG  60
   61 FASGGIFGIP MFIDQKAGIN GSFMGFCLSL LVAFGIAFIS TLIWGDKIVS TTSK

[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 #6

Region A:
Residues: [555-730]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KDFKVKRVEF KDQGIASPVQ GTALELKNVD DPVFSAGTIG KGIAVQPNND EIHAPFDGEV  60
   61 VSVFPTKHAI GLKSDNGVEL LIHLGINTVN LKGKYFEVKV EVGQKVKQGD LLETFDVDKI 120
  121 KAAGYDTVVP IIVTNANNFD DIIIEKKNGD SVRFEDQILM ATVDQEVEIP DNATQA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	40.69897
Match:	1ggrA
Description:	Glucose-specific factor III (glsIII)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein-N(PI)-phosphohistidine-sugar phosphotransferase activity	3.63095060058431	bayes_pls_golite062009
carbohydrate transmembrane transporter activity	2.68179471492286	bayes_pls_golite062009
binding	0.587569240975485	bayes_pls_golite062009
transporter activity	0.416424316903358	bayes_pls_golite062009
transmembrane transporter activity	0.245554686788991	bayes_pls_golite062009
active transmembrane transporter activity	0.00716122418063003	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: