YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39982605, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	225 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|39982605, gi|....

Description	E-value	Query Range	Subject Range
gi\|29840113, gi\|... - gi\|29840113\|ref\|NP_829219.1\| DNA binding protein/PTS system, IIA component [Chlamydophila caviae GPI...	171.0	[0..1]	[223..1]
gi\|88918244, gi\|... - gi\|88934979\|ref\|ZP_01140617.1\| Excisionase/Xis, DNA-binding [Geobacter uraniumreducens Rf4], gi\|8891...	170.0	[0..1]	[225..1]
gi\|78223801, gi\|... - gi\|78223801\|ref\|YP_385548.1\| putative PTS IIA-like nitrogen-regulatory protein PtsN [Geobacter metal...	169.0	[0..1]	[224..1]
gi\|89898464, gi\|... - gi\|89898464\|ref\|YP_515574.1\| phosphotransferase system mannitol/fructose-specific Pts IIA [Chlamydop...	168.0	[0..1]	[223..1]
gi\|62148038, gi\|... - gi\|62184971\|ref\|YP_219756.1\| PTS system, IIA component [Chlamydophila abortus S26/3], gi\|62148038\|em...	166.0	[0..1]	[223..1]
gi\|15835597, gi\|... - gi\|8978435\|dbj\|BAA98272.1\| Pts IIA protein with HTH DNA-Binding domain [Chlamydophila pneumoniae J13... gi\|33241397, gi\|... - gi\|33241397\|ref\|NP_876338.1\| phosphotransferase system enzyme II [Chlamydophila pneumoniae TW-183], ... gi\|8163486, gi\|1... - gi\|8163486\|gb\|AAF73698.1\| PTS system, IIA component [Chlamydophila pneumoniae AR39], gi\|16752983\|ref... gi\|25403716 - pir\|\|F86498 Pts IIA protein with HTH DNA-Binding domain [imported] - Chlamydophila pneumoniae (strai...	166.0	[0..1]	[222..1]
gi\|7468533 - pir\|\|F72124 pts iia protein + hth dna-binding domain - Chlamydophila pneumoniae (strain CWL029) gi\|15617985, gi\|... - gi\|4376317\|gb\|AAD18214.1\| PTS IIA Protein + HTH DNA-Binding Domain [Chlamydophila pneumoniae CWL029]...	165.0	[0..1]	[222..1]
gi\|46399541, gi\|... - gi\|46445900\|ref\|YP_007265.1\| putative nitrogen regulatory IIA protein (enzyme IIA-ntr) (phosphotrans...	158.0	[0..2]	[223..4]
gi\|8163249, gi\|1... - gi\|8163249\|gb\|AAF73570.1\| PTS system, IIA component [Chlamydia muridarum Nigg], ref\|NP_296939.1\| PTS... gi\|8163249, gi\|1... - gi\|8163249\|gb\|AAF73570.1\| PTS system, IIA component [Chlamydia muridarum Nigg], gi\|15835180\|ref\|NP_2...	158.0	[0..1]	[223..1]
gi\|222054802, gi... - gi\|222054802\|ref\|YP_002537164.1\| putative PTS IIA-like nitrogen-regulatory protein PtsN [Geobacter s...	155.0	[0..1]	[225..1]

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Predicted Domain #1

Region A:
Residues: [1-68]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLLNAAEAAR LLSTDEKTVK RWIRRDGLPA TPVDGEPRIN RIDLLEWATE RGIKVLPEAY  60
   61 AGAGDEPG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.09
Match:	1j9iA
Description:	Terminase gpNU1 subunit domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	1.3695638465841	bayes_pls_golite062009
binding	1.25832675558318	bayes_pls_golite062009
DNA binding	0.248046419970394	bayes_pls_golite062009
transcription factor activity	0.142555021912665	bayes_pls_golite062009
nucleic acid binding	0.118048144195768	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [69-225]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LFPSLSSALQ AGGIHCNVPG DDKLTVLRNV VDLLPLPQQV DPEFVLQVLL AREALGTTAI  60
   61 GDGIAIPHMR NPILLHVAGS SITLCHLATP VDFGALDGKP VQILFTLTSP TVKAHLHLLS 120
  121 RLAHALRDPR LREALKRPCD PAGILAAVAE IERSLGG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.045757
Match:	1a3aA
Description:	Phosphotransferase IIa-mannitol
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein-N(PI)-phosphohistidine-sugar phosphotransferase activity	4.89047341597444	bayes_pls_golite062009
carbohydrate transmembrane transporter activity	3.92377913213665	bayes_pls_golite062009
transporter activity	2.16741930408232	bayes_pls_golite062009
transmembrane transporter activity	2.05879816720019	bayes_pls_golite062009
active transmembrane transporter activity	1.87457143976439	bayes_pls_golite062009
substrate-specific transporter activity	1.82451780056478	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.7251575499811	bayes_pls_golite062009
binding	0.396676636991646	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.19707628828681	bayes_pls_golite062009
ion transmembrane transporter activity	0.12881601139602	bayes_pls_golite062009
anion transmembrane transporter activity	0.10209580008722	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: