YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16802888
Organism:	Listeria monocytogenes EGD-e
Length:	480 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|16802888.

Description	E-value	Query Range	Subject Range
gi\|254879962 - gi\|254879962\|ref\|ZP_05252672.1\| Glutamine ABC transporter (binding and transport protein) [Listeria ... gi\|254852338 - gi\|254852338\|ref\|ZP_05241686.1\| Glutamine ABC transporter (binding and transport protein) [Listeria ... gi\|254993068 - gi\|254993068\|ref\|ZP_05275258.1\| Glutamine ABC transporter (binding and transport protein) [Listeria ... gi\|47092054, gi\|... - gi\|47092054\|ref\|ZP_00229847.1\| glutamine ABC transporter, permease/substrate-binding protein [Lister... gi\|133735858, gi... - gi\|254931228\|ref\|ZP_05264587.1\| Glutamine ABC transporter (binding and transport protein) [Listeria ... gi\|153166167, gi... - gi\|153166167\|ref\|ZP_01926786.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste... gi\|254823885 - gi\|254823885\|ref\|ZP_05228886.1\| Glutamine ABC transporter (binding and transport protein) [Listeria ... gi\|226223465, gi... - gi\|226223465\|ref\|YP_002757572.1\| Glutamine ABC transporter (binding and transport protein) [Listeria...	303.0	[0..1]	[480..1]
gi\|254935857 - gi\|254935857\|ref\|ZP_05267554.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste... gi\|254898981, gi... - gi\|254898981\|ref\|ZP_05258905.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste... gi\|47016735, gi\|... - gi\|47094853\|ref\|ZP_00232467.1\| glutamine ABC transporter, permease/substrate-binding protein [Lister... gi\|127766174, gi... - gi\|254911531\|ref\|ZP_05261543.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste...	302.0	[0..1]	[480..1]
gi\|46880345, gi\|... - gi\|46907078\|ref\|YP_013467.1\| glutamine ABC transporter, permease/substrate-binding protein [Listeria... gi\|224503184 - gi\|224503184\|ref\|ZP_03671491.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste... gi\|255520210 - gi\|255520210\|ref\|ZP_05387447.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste... gi\|127632725, gi... - gi\|254832188\|ref\|ZP_05236843.1\| glutamine ABC transporter, permease/substrate-binding protein [Liste...	302.0	[0..1]	[480..1]
gi\|16799914 - gi\|16799914\|ref\|NP_470182.1\| hypothetical protein lin0840 [Listeria innocua Clip11262] gi\|25517319, gi\|... - pir\|\|AH1537 Glutamine ABC transporter (binding and transport protein) homolog lin0840 [imported] - L...	300.0	[0..1]	[480..1]
gi\|89342053, gi\|... - gi\|89342053\|ref\|ZP_01194293.1\| Amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gl...	282.0	[0..2]	[477..18]
gi\|68446829, gi\|... - gi\|70726105\|ref\|YP_253019.1\| hypothetical protein SH1104 [Staphylococcus haemolyticus JCSC1435], gi\|...	282.0	[0..1]	[478..1]
gi\|29342814, gi\|... - gi\|29375354\|ref\|NP_814508.1\| amino acid ABC transporter, amino acid-binding/permease protein [Entero... gi\|227554876, gi... - gi\|227554876\|ref\|ZP_03984923.1\| amino acid ABC superfamily ATP binding cassette transporter protein ...	280.0	[0..22]	[477..262]
gi\|253315189 - gi\|253315189\|ref\|ZP_04838402.1\| polar amino acid ABC transporter, inner membrane subunit [Staphyloco... gi\|255006646 - gi\|255006646\|ref\|ZP_05145247.2\| polar amino acid ABC transporter, inner membrane subunit [Staphyloco... gi\|90427984, gi\|... - gi\|90583087\|ref\|ZP_01238848.1\| Amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gl... gi\|269203495\|ref... - amino acid ABC transporter, permease [Staphylococcus aureus subsp. aureus ED98] gi\|148268330, gi... - gi\|90586794\|ref\|ZP_01242483.1\| Amino acid ABC transporter, permease protein, 3-TM region, His/Glu/Gl...	275.0	[0..1]	[477..1]
gi\|221142158 - gi\|221142158\|ref\|ZP_03566651.1\| amino acid ABC transporter ATP-binding protein [Staphylococcus aureu... gi\|49486677, gi\|... - gi\|49486677\|ref\|YP_043898.1\| putative extracellular glutamine-binding protein [Staphylococcus aureus... gi\|57650648, gi\|... - gi\|57650648\|ref\|YP_186741.1\| amino acid ABC transporter, permease/substrate-binding protein [Staphyl... gi\|221138287 - gi\|221138287\|ref\|ZP_03563089.1\| amino acid ABC transporter ATP-binding protein [Staphylococcus aureu... gi\|253723797, gi... - gi\|253732516\|ref\|ZP_04866681.1\| amino acid ABC superfamily ATP binding cassette transporter, membran... gi\|21283528, gi\|... - gi\|21283528\|ref\|NP_646616.1\| hypothetical protein MW1799 [Staphylococcus aureus subsp. aureus MW2], ... gi\|87203240, gi\|... - gi\|88195682\|ref\|YP_500488.1\| ABC transporter, permease protein, putative [Staphylococcus aureus subs... gi\|161510076, gi... - gi\|161510076\|ref\|YP_001575735.1\| amino acid ABC transporter ATP-binding protein [Staphylococcus aure... gi\|251814854, gi... - gi\|251814854\|ref\|ZP_04829327.1\| amino acid ABC superfamily ATP binding cassette transporter, membran... gi\|87127615, gi\|... - gi\|87161641\|ref\|YP_494491.1\| amino acid ABC transporter, permease/substrate-binding protein [Staphyl... gi\|87127615\|gb\|A... - amino acid ABC transporter, permease/substrate-binding protein [Staphylococcus aureus subsp. aureus ... gi\|150374762, gi... - gi\|151221962\|ref\|YP_001332784.1\| extracellular glutamine-binding protein [Staphylococcus aureus subs...	275.0	[0..1]	[477..1]
gi\|110801621, gi... - gi\|110801621\|ref\|YP_699371.1\| glutamine-binding periplasmic protein of glutamine ABC transporter [Cl...	274.0	[0..1]	[477..1]

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Predicted Domain #1

Region A:
Residues: [1-188]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKKFSRFILM MAIACVAAFI FTGNGLNAKA AEEIYLIGTD TTFAPFEFEK DGEHVGIDMD  60
   61 ILKAIAKDQN FKYEIKAMGF NAAVQALEAN QVDGVIAGMS ITDERKQKFD FSDPYFDSGV 120
  121 VMGILKDNDE IKTYDDLKGK KVAVKTGTEG YAFAEKIKDK YDFDIVVFDD SAQMYDDVKT 180
  181 RNSVACFD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.0
Match:	1gggA
Description:	Glutamine-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transporter activity	3.92658561501282	bayes_pls_golite062009
transmembrane transporter activity	3.71430307970333	bayes_pls_golite062009
amine transmembrane transporter activity	3.68263102620434	bayes_pls_golite062009
polyamine transmembrane transporter activity	3.56664180812545	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	3.45855021324499	bayes_pls_golite062009
organic acid transmembrane transporter activity	3.44437031517765	bayes_pls_golite062009
active transmembrane transporter activity	3.25041295044206	bayes_pls_golite062009
anion transmembrane-transporting ATPase activity	3.25040168593981	bayes_pls_golite062009
inorganic anion transmembrane transporter activity	3.16446457499691	bayes_pls_golite062009
primary active transmembrane transporter activity	3.11737631998936	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	3.11705111590472	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	3.10446376809293	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	3.10446376809293	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	3.10218613709054	bayes_pls_golite062009
substrate-specific transporter activity	3.08939958030684	bayes_pls_golite062009
polyamine-transporting ATPase activity	2.84609722276735	bayes_pls_golite062009
amino acid binding	2.79295963421917	bayes_pls_golite062009
peptide transporter activity	2.75577307623285	bayes_pls_golite062009
molybdate transmembrane-transporting ATPase activity	2.58578176144479	bayes_pls_golite062009
molybdate ion transmembrane transporter activity	2.58578176144479	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.51750037542166	bayes_pls_golite062009
amino acid transmembrane transporter activity	2.47628874886983	bayes_pls_golite062009
ATPase activity, coupled	2.46598025840834	bayes_pls_golite062009
hydrolase activity	2.41680852416007	bayes_pls_golite062009
polyamine binding	2.27573366139794	bayes_pls_golite062009
ATPase activity	2.22107983126774	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.16305304794278	bayes_pls_golite062009
pyrophosphatase activity	2.08989799392446	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.06979125310099	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.06762097920234	bayes_pls_golite062009
oligopeptide transporter activity	1.91036692266394	bayes_pls_golite062009
amine binding	1.8788269931912	bayes_pls_golite062009
amino acid-transporting ATPase activity	1.65232476690022	bayes_pls_golite062009
amine-transporting ATPase activity	1.59812090922796	bayes_pls_golite062009
ion transmembrane transporter activity	1.57698908250492	bayes_pls_golite062009
binding	1.54172013140566	bayes_pls_golite062009
neutral amino acid transmembrane transporter activity	0.937785300129223	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	0.88623763826001	bayes_pls_golite062009
catalytic activity	0.674312982669564	bayes_pls_golite062009
anion transmembrane transporter activity	0.55229829618114	bayes_pls_golite062009
L-amino acid transmembrane transporter activity	0.29299124929094	bayes_pls_golite062009
putrescine transmembrane transporter activity	0.212254208912362	bayes_pls_golite062009
sulfate transmembrane-transporting ATPase activity	0.0940079640524907	bayes_pls_golite062009
cation transmembrane transporter activity	0.067986302221225	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [189-261]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DYPVLAYGVQ TGNGLKIVTE KEKGNSYGFA VNKGKNQELL EKFNAGLVNI KASGEYEKIL  60
   61 KNYLGKNAIK ENT

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.85
Match:	1pb7A
Description:	N-methyl-D-aspartate receptor subunit 1
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [262-480]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TEKGFMGIIK SSWPALLSGL WLTIRLAVVS LIIAFIIGIT FGFMKVSNSK ILRGIATVYV  60
   61 DIFRGTPLIV QAFFFYFGIP AALDFRMPVF LAGVIALSLN AGAYMVEIVR GGIQSVDKGQ 120
  121 MEAARSLGLP HKKAMMKVVL PQAIRMMIPS FINQFVITLK DTSIMSAIGL VELTQSGKII 180
  181 MARTFESTWT WLIIGIMYLI VITILTKISD RLERRLRND

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	20.154902
Match:	2onkC
Description:	No description for 2onkC was found.

Predicted functions:

Term	Confidence	Notes
transporter activity	4.47791794099048	bayes_pls_golite062009
transmembrane transporter activity	4.39634414867723	bayes_pls_golite062009
active transmembrane transporter activity	3.89128503869358	bayes_pls_golite062009
primary active transmembrane transporter activity	3.78071702105421	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	3.78024819585319	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	3.76710689838502	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	3.76710689838502	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	3.76480875126102	bayes_pls_golite062009
substrate-specific transporter activity	3.65928254714629	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	3.61840729006809	bayes_pls_golite062009
hydrolase activity	3.16970696790068	bayes_pls_golite062009
ATPase activity, coupled	3.13976951511862	bayes_pls_golite062009
anion transmembrane-transporting ATPase activity	3.02008043485765	bayes_pls_golite062009
ATPase activity	2.90304684848114	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.85886572725081	bayes_pls_golite062009
pyrophosphatase activity	2.78799656158331	bayes_pls_golite062009
inorganic anion transmembrane transporter activity	2.78085051148891	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.76854894183109	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.76635806953632	bayes_pls_golite062009
ion transmembrane transporter activity	2.42886654788147	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	1.77292242910033	bayes_pls_golite062009
organic acid transmembrane transporter activity	1.77066316989042	bayes_pls_golite062009
cation transmembrane transporter activity	1.54974155411368	bayes_pls_golite062009
sulfate transmembrane-transporting ATPase activity	1.37549816189565	bayes_pls_golite062009
amine transmembrane transporter activity	1.35745015743741	bayes_pls_golite062009
catalytic activity	1.19420323065978	bayes_pls_golite062009
secondary active transmembrane transporter activity	0.96228415837358	bayes_pls_golite062009
molybdate ion transmembrane transporter activity	0.75828155378636	bayes_pls_golite062009
molybdate transmembrane-transporting ATPase activity	0.75828155378636	bayes_pls_golite062009
amino acid transmembrane transporter activity	0.702245581829122	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	0.69074662322395	bayes_pls_golite062009
symporter activity	0.483541714040201	bayes_pls_golite062009
solute:cation symporter activity	0.483541714040201	bayes_pls_golite062009
anion transmembrane transporter activity	0.18066368771781	bayes_pls_golite062009
sugar transmembrane transporter activity	0.149318428666465	bayes_pls_golite062009
carbohydrate transmembrane transporter activity	0.0202682073710961	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: