YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24374999, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	476 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|24374999, gi|....

Description	E-value	Query Range	Subject Range
gi\|113884101, gi... - gi\|82497558\|ref\|ZP_00883091.1\| Secretion protein HlyD [Shewanella sp. MR-4], gi\|82404481\|gb\|EAP45169...	264.0	[0..65]	[476..1]
gi\|117611858, gi... - gi\|78685779\|ref\|ZP_00850554.1\| Secretion protein HlyD [Shewanella sp. ANA-3], gi\|78506464\|gb\|EAP1998...	264.0	[0..65]	[476..1]
gi\|113888093, gi... - gi\|114046651\|ref\|YP_737201.1\| RND family efflux transporter MFP subunit [Shewanella sp. MR-7], gi\|11...	263.0	[0..65]	[476..1]
gi\|82722227, gi\|... - gi\|82740328\|ref\|ZP_00903069.1\| Secretion protein HlyD [Shewanella sp. W3-18-1], gi\|82722227\|gb\|EAP57... gi\|77809534, gi\|... - gi\|77815522\|ref\|ZP_00814751.1\| Secretion protein HlyD [Shewanella putrefaciens CN-32], gi\|77809534\|g...	259.0	[0..65]	[476..1]
gi\|78222029, gi\|... - gi\|78222029\|ref\|YP_383776.1\| secretion protein HlyD [Geobacter metallireducens GS-15], gi\|78193284\|g...	258.0	[0..66]	[452..1]
gi\|160876431, gi... - gi\|160876431\|ref\|YP_001555747.1\| RND family efflux transporter MFP subunit [Shewanella baltica OS195...	257.0	[0..65]	[476..1]
gi\|126175383, gi... - gi\|68543338\|ref\|ZP_00583047.1\| Secretion protein HlyD [Shewanella baltica OS155], gi\|68518983\|gb\|EAN...	256.0	[0..65]	[476..1]
gi\|110833826, gi... - gi\|110833826\|ref\|YP_692685.1\| multidrug/solvent RND membrane fusion protein, putative [Alcanivorax b...	254.0	[0..67]	[470..36]
gi\|93354493, gi\|... - gi\|94310641\|ref\|YP_583851.1\| secretion protein HlyD [Ralstonia metallidurans CH34], gi\|93354493\|gb\|A...	250.0	[0..69]	[468..7]
gi\|17973459 - gi\|17973459\|gb\|AAL32125.1\| membrane fusion protein AcrA [Proteus mirabilis]	246.0	[0..64]	[458..1]

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Predicted Domain #1

Region A:
Residues: [1-88]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFIKLSQNIT YSSVQNLLTG SFYNIYYRSV HNIFYQSVFI DFDRVPISDV CLKRDKCLPH  60
   61 EDCKMISNPT LRTLMLTTVA AFVLSACG

[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 #2

Region A:
Residues: [89-476]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EPEVLQGQAP AAPKVDVAQV LQERVTEWDE FTGRLQAPES VTLVPRVSGY IASVNFKEGA  60
   61 LVKKGDVLFR IDASVFEAEV ARLKADLASA LSADQLATND LERARKLFVQ KAVSAELLDT 120
  121 RESNKRQTTA AVASVKAALL RAELDLDYTQ VRAPIDGRAS YANVTAGNYV SAGQSVLTHL 180
  181 VSTASMYAYF DVDEQTYLKY VKLTAEKKRN DPRAGDNPVY MALANEREYQ HVGIVDFVDN 240
  241 AMDRQTGTIR VRATFSNEDN SLLPGLFARL RTAGSSAYDG ILIDDKAVGT DLNNKFVLVV 300
  301 ANDGTVEYRG VTLGEKVQGL RIVKQGLAAN DKIVVNGMQR VRPKMQIEPL LVDMADSEQL 360
  361 EALRHAQLML DKNQENLTTQ AVEVASRG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	55.522879
Match:	1t5eA
Description:	The structure of MexA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
drug transmembrane transporter activity	6.72943251269963	bayes_pls_golite062009
	6.35210689530056	bayes_pls_golite062009
	6.27508108329198	bayes_pls_golite062009
transporter activity	4.64829294279324	bayes_pls_golite062009
transmembrane transporter activity	3.3430410220484	bayes_pls_golite062009
protein transporter activity	2.78337364594901	bayes_pls_golite062009
substrate-specific transporter activity	2.32388774487807	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.892013812755237	bayes_pls_golite062009
metal ion transmembrane transporter activity	0.729251657794536	bayes_pls_golite062009
ion transmembrane transporter activity	0.696350598512404	bayes_pls_golite062009
cation transmembrane transporter activity	0.560994844134224	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: