YRC Public Data Repository - Protein Structure Prediction

Protein:	SLC6A4
Organism:	Homo sapiens
Length:	630 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 SLC6A4.

Description	E-value	Query Range	Subject Range
SC6A4_MACMU - Sodium-dependent serotonin transporter OS=Macaca mulatta GN=SLC6A4 PE=2 SV=1	0.0	[1..630]	[1..630]
gi\|114668300, gi... - gi\|114668302\|ref\|XP_001135146.1\| PREDICTED: solute carrier family 6 member 4 isoform 2 [Pan troglody...	0.0	[1..630]	[1..630]
gi\|117616752 - gi\|117616752\|gb\|ABK42394.1\| Slc6a4 [synthetic construct] SC6A4_MOUSE, S6A... - Sodium-dependent serotonin transporter OS=Mus musculus GN=Slc6a4 PE=1 SV=3, (Q60857) Sodium-dependen...	0.0	[1..630]	[1..630]
gi\|126352538, gi... - gi\|126352538\|ref\|NP_001075293.1\| serotonin transporter [Equus caballus], gi\|110225193\|dbj\|BAE97586.1...	0.0	[1..630]	[1..630]
SC6A4_BOVIN - Sodium-dependent serotonin transporter OS=Bos taurus GN=SLC6A4 PE=2 SV=1	0.0	[1..630]	[1..630]
SC6A4_RAT - Sodium-dependent serotonin transporter OS=Rattus norvegicus GN=Slc6a4 PE=1 SV=1 gi\|57743 - gi\|57743\|emb\|CAA44913.1\| serotonin transporter [Rattus rattus]	0.0	[1..630]	[1..630]
gi\|160425239, gi... - gi\|78771531\|dbj\|BAE47960.1\| serotnin transporter [Canis lupus familiaris], gi\|160425239\|ref\|NP_00110...	0.0	[1..630]	[1..630]

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Predicted Domain #1

Region A:
Residues: [1-630]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METTPLNSQK QLSACEDGED CQENGVLQKV VPTPGDKVES GQISNGYSAV PSPGAGDDTR  60
   61 HSIPATTTTL VAELHQGERE TWGKKVDFLL SVIGYAVDLG NVWRFPYICY QNGGGAFLLP 120
  121 YTIMAIFGGI PLFYMELALG QYHRNGCISI WRKICPIFKG IGYAICIIAF YIASYYNTIM 180
  181 AWALYYLISS FTDQLPWTSC KNSWNTGNCT NYFSEDNITW TLHSTSPAEE FYTRHVLQIH 240
  241 RSKGLQDLGG ISWQLALCIM LIFTVIYFSI WKGVKTSGKV VWVTATFPYI ILSVLLVRGA 300
  301 TLPGAWRGVL FYLKPNWQKL LETGVWIDAA AQIFFSLGPG FGVLLAFASY NKFNNNCYQD 360
  361 ALVTSVVNCM TSFVSGFVIF TVLGYMAEMR NEDVSEVAKD AGPSLLFITY AEAIANMPAS 420
  421 TFFAIIFFLM LITLGLDSTF AGLEGVITAV LDEFPHVWAK RRERFVLAVV ITCFFGSLVT 480
  481 LTFGGAYVVK LLEEYATGPA VLTVALIEAV AVSWFYGITQ FCRDVKEMLG FSPGWFWRIC 540
  541 WVAISPLFLL FIICSFLMSP PQLRLFQYNY PYWSIILGYC IGTSSFICIP TYIAYRLIIT 600
  601 PGTFKERIIK SITPETPTEI PCGDIRLNAV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	78.09691
Match:	2a65A
Description:	Crystal structure of LEUTAA, a bacterial homolog of Na+/Cl--dependent neurotransmitter transporters
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glycine transmembrane transporter activity	11.3462233177624	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	7.22946100807286	bayes_pls_golite062009
cation transmembrane transporter activity	6.81299720354921	bayes_pls_golite062009
ion transmembrane transporter activity	6.70367174546308	bayes_pls_golite062009
amine transmembrane transporter activity	6.56670564439223	bayes_pls_golite062009
neutral amino acid transmembrane transporter activity	6.33167860290665	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	5.71289406236765	bayes_pls_golite062009
organic acid transmembrane transporter activity	5.69783123069145	bayes_pls_golite062009
transporter activity	5.41729552690402	bayes_pls_golite062009
substrate-specific transporter activity	5.3581057816165	bayes_pls_golite062009
transmembrane transporter activity	5.33581060534257	bayes_pls_golite062009
monoamine transmembrane transporter activity	5.31806171557443	bayes_pls_golite062009
serotonin transmembrane transporter activity	5.22437090102976	bayes_pls_golite062009
norepinephrine transmembrane transporter activity	5.09475702546654	bayes_pls_golite062009
active transmembrane transporter activity	4.68541050294042	bayes_pls_golite062009
taurine transmembrane transporter activity	4.61676680068455	bayes_pls_golite062009
amino acid transmembrane transporter activity	4.6018168706595	bayes_pls_golite062009
taurine:sodium symporter activity	4.44443197285659	bayes_pls_golite062009
neurotransmitter transporter activity	4.39219594760011	bayes_pls_golite062009
taurine binding	4.32148954519383	bayes_pls_golite062009
beta-alanine transmembrane transporter activity	4.32148954519383	bayes_pls_golite062009
metal ion transmembrane transporter activity	3.87108500507564	bayes_pls_golite062009
monocarboxylic acid transmembrane transporter activity	3.84070781430742	bayes_pls_golite062009
cation:amino acid symporter activity	3.743834410703	bayes_pls_golite062009
L-amino acid transmembrane transporter activity	3.59581534621744	bayes_pls_golite062009
gamma-aminobutyric acid:sodium symporter activity	3.54502199515084	bayes_pls_golite062009
L-gamma-aminobutyric acid transmembrane transporter activity	3.54502199515084	bayes_pls_golite062009
secondary active transmembrane transporter activity	3.52796002058936	bayes_pls_golite062009
organic acid:sodium symporter activity	3.13700347625317	bayes_pls_golite062009
solute:cation symporter activity	3.06163068745863	bayes_pls_golite062009
symporter activity	3.06163068745863	bayes_pls_golite062009
D-amino acid transmembrane transporter activity	3.05547330089228	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	2.96397568544208	bayes_pls_golite062009
sodium ion transmembrane transporter activity	2.96263002501356	bayes_pls_golite062009
neurotransmitter:sodium symporter activity	2.85886896504752	bayes_pls_golite062009
solute:sodium symporter activity	2.69043348576901	bayes_pls_golite062009
dopamine transmembrane transporter activity	2.58457054403528	bayes_pls_golite062009
dopamine:sodium symporter activity	2.58457054403528	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.25031429733377	bayes_pls_golite062009
sodium:amino acid symporter activity	2.11262345327121	bayes_pls_golite062009
binding	2.09841803960057	bayes_pls_golite062009
cation channel activity	1.98082939418842	bayes_pls_golite062009
amine binding	1.94062923967142	bayes_pls_golite062009
ion channel activity	1.46844692044197	bayes_pls_golite062009
molecular transducer activity	1.43924755059525	bayes_pls_golite062009
signal transducer activity	1.43924755059525	bayes_pls_golite062009
passive transmembrane transporter activity	1.43469451491638	bayes_pls_golite062009
channel activity	1.43469451491638	bayes_pls_golite062009
substrate-specific channel activity	1.42613760305472	bayes_pls_golite062009
cocaine binding	1.19517364220938	bayes_pls_golite062009
receptor activity	0.933085226787869	bayes_pls_golite062009
potassium:amino acid symporter activity	0.9050760910728	bayes_pls_golite062009
transmembrane receptor activity	0.849801862133405	bayes_pls_golite062009
protein binding	0.541360409289497	bayes_pls_golite062009
norephinephrine:sodium symporter activity	0.331385084269681	bayes_pls_golite062009
neurotransmitter binding	0.276720775023801	bayes_pls_golite062009
protein complex binding	0.131316764331102	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: