YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24346112, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	404 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|24346112, gi|....

Description	E-value	Query Range	Subject Range
gi\|12407248 - gi\|12407248\|dbj\|BAB21395.1\| cytochrome b [Rhyacichthys aspro]	599.0	[0..6]	[403..1]
CYB_HYPCM - Cytochrome b OS=Hypseleotris compressa GN=mt-cyb PE=3 SV=1	593.0	[0..6]	[403..1]
gi\|12407254 - gi\|12407254\|dbj\|BAB21398.1\| cytochrome b [Calumia godeffroyi]	591.0	[0..6]	[403..1]
gi\|12407276 - gi\|12407276\|dbj\|BAB21409.1\| cytochrome b [Ophieleotris sp.]	590.0	[0..6]	[403..1]
gi\|12407264 - gi\|12407264\|dbj\|BAB21403.1\| cytochrome b [Eleotris oxycephala]	588.0	[0..6]	[403..1]
gi\|12407256 - gi\|12407256\|dbj\|BAB21399.1\| cytochrome b [Dormitator maculatus]	587.0	[0..6]	[403..1]
gi\|12407292 - gi\|12407292\|dbj\|BAB21417.1\| cytochrome b [Ptereleotris heteroptera]	587.0	[0..6]	[403..1]
gi\|12407272 - gi\|12407272\|dbj\|BAB21407.1\| cytochrome b [Mogurnda mogurnda]	587.0	[0..6]	[402..1]
gi\|12407294 - gi\|12407294\|dbj\|BAB21418.1\| cytochrome b [Taenioides limicola]	585.0	[0..6]	[403..1]
gi\|12407302 - gi\|12407302\|dbj\|BAB21422.1\| cytochrome b [Protogobius attiti]	584.0	[0..6]	[403..1]

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Predicted Domain #1

Region A:
Residues: [1-404]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKNLINWID ARIPMTATYN RHVGQYATPT NFNFWYFFGS LAMLVLVNQL LTGIWLTMNY  60
   61 VPTAEGAFAS VEYIMRDVEY GWLLRYMHST GASAFFVVIY LHMFRGLIYG SYQKPRELLW 120
  121 LFGMLIFLVL MAEAFMGYLL PWGQMSYWGA QVIISLFGAI PVIGDDLTLW IRGDYVISGA 180
  181 TLNRFFALHV IALPLVLVVL VFLHLIALHE VGSNNPDGIE IKKNKDENGW PVDGIPFHPY 240
  241 YTVKDIMGVA GFLIVFCYVL FFIPEGGGYF LEKPNFEAAN PMKTPEHIAP VWYFTPFYAI 300
  301 LRAVPDKLGG VIMMGLSIGV LFVLPWLDRC KVKSVRYRST LHKLNIAQFA VSFIVLGYLG 360
  361 VVPASPTLTI VAQVFTFTYF GFFVALWVYS KNEKTKPVPA RLTH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	159.0
Match:	1bccC
Description:	Mitochondrial cytochrome b subunit, C-terminal domain; Mitochondrial cytochrome b subunit, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on diphenols and related substances as donors, cytochrome as acceptor	12.6027406026517	bayes_pls_golite062009
ubiquinol-cytochrome-c reductase activity	12.6027406026517	bayes_pls_golite062009
oxidoreductase activity, acting on diphenols and related substances as donors	9.20388916419937	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	7.91754205622571	bayes_pls_golite062009
oxidoreductase activity	6.47658304679899	bayes_pls_golite062009
electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity	6.28608054530718	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	6.2092870783393	bayes_pls_golite062009
cation transmembrane transporter activity	5.7873765619132	bayes_pls_golite062009
ion transmembrane transporter activity	5.68072183887254	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	5.3015608578326	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	5.25342386319285	bayes_pls_golite062009
NADH dehydrogenase activity	4.56441771839315	bayes_pls_golite062009
electron carrier activity	4.44921672214173	bayes_pls_golite062009
formate dehydrogenase activity	3.83149707063563	bayes_pls_golite062009
transporter activity	3.45764306673522	bayes_pls_golite062009
substrate-specific transporter activity	3.38637995472629	bayes_pls_golite062009
transmembrane transporter activity	3.37175230596465	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	2.22476140193744	bayes_pls_golite062009
catalytic activity	1.19342057724506	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	1.03512868485178	bayes_pls_golite062009
binding	0.774901332897627	bayes_pls_golite062009
protein binding	0.404482007264961	bayes_pls_golite062009
nucleic acid binding	0.158842209858127	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: