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 are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no 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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no 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 are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no 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: