YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|34876835
Organism:	Rattus norvegicus
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|34876835.

Description	E-value	Query Range	Subject Range
gi\|109088214 - gi\|109088214\|ref\|XP_001085071.1\| PREDICTED: similar to dehydrogenase E1 and transketolase domain con...	0.0	[1..476]	[1011..1486]
gi\|73949146 - gi\|73949146\|ref\|XP_535191.2\| PREDICTED: similar to Sec61, alpha subunit 2 [Canis familiaris]	0.0	[3..476]	[78..551]
gi\|114589143 - gi\|114589143\|ref\|XP_516725.2\| PREDICTED: similar to sec61-like protein [Pan troglodytes]	0.0	[3..476]	[114..587]
gi\|50798652 - gi\|50798652\|ref\|XP_424024.1\| PREDICTED: similar to Sec61 alpha isoform 2, partial [Gallus gallus]	0.0	[1..476]	[65..540]
gi\|52345506, gi\|... - gi\|89271300\|emb\|CAJ82441.1\| Sec61 alpha 1 subunit (S. cerevisiae) [Xenopus tropicalis], gi\|52345506\|...	0.0	[1..476]	[1..476]
gi\|28175720, gi\|... - gi\|28175720\|gb\|AAH45117.1\| Sec61a1 protein [Xenopus laevis], gi\|148228235\|ref\|NP_001080244.1\| Sec61 ...	0.0	[1..476]	[1..476]
S61A2_PONAB - Protein transport protein Sec61 subunit alpha isoform 2 OS=Pongo abelii GN=SEC61A2 PE=2 SV=1 gi\|56403682 - gi\|56403682\|emb\|CAI29636.1\| hypothetical protein [Pongo abelii]	0.0	[1..476]	[1..476]

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Predicted Domain #1

Region A:
Residues: [1-476]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGIKFLEVIK PFCAVLPEIQ KPERKIQFRE KVLWTAITLF IFLVCCQIPL FGIMSSDSAD  60
   61 PFYWMRVILA SNRGTLMELG ISPIVTSGLI MQLLAGAKII EVGDTPKDRA LFNGAQKLFG 120
  121 MIITIGQAIV YVMTGMYGDP AEMGAGICLL IIIQLFVAGL IVLLLDELLQ KGYGLGSGIS 180
  181 LFIATNICET IVWKAFSPTT INTGRGTEFE GAVIALFHLL ATRTDKVRAL REAFYRQNLP 240
  241 NLMNLIATVF VFAVVIYFQG FRVDLPIKSA RYRGQYSSYP IKLFYTSNIP IILQSALVSN 300
  301 LYVISQMLSV RFSGNFLVNL LGQWADVSGG GPARSYPVGG LCYYLSPPES MGAIFEDPVH 360
  361 VVVYIIFMLG SCAFFSKTWI EVSGSSAKDV AKQLKEQQMV MRGHRDTSMV HELNRYIPTA 420
  421 AAFGGLCIGA LSVLADFLGA IGSGTGILLA VTIIYQYFEI FVKEQAEVGG MGALFF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	71.045757
Match:	1rh5A
Description:	The structure of a protein conducting channel
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ribonucleoprotein binding	5.96221631042313	bayes_pls_golite062009
protein transporter activity	5.55929343005534	bayes_pls_golite062009
transporter activity	3.32223562584466	bayes_pls_golite062009
substrate-specific transporter activity	3.22714325269757	bayes_pls_golite062009
P-P-bond-hydrolysis-driven protein transmembrane transporter activity	2.12732472524264	bayes_pls_golite062009
macromolecule transmembrane transporter activity	2.12732472524264	bayes_pls_golite062009
protein transmembrane transporter activity	1.76187269823414	bayes_pls_golite062009
transmembrane transporter activity	1.67782980643723	bayes_pls_golite062009
binding	1.4562802789412	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.42890247609405	bayes_pls_golite062009
primary active transmembrane transporter activity	1.15847548838424	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	1.15316743403707	bayes_pls_golite062009
active transmembrane transporter activity	1.10003802565492	bayes_pls_golite062009
peptide transporter activity	1.01893828721893	bayes_pls_golite062009
protein binding	0.674651002700028	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: