YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24347681, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	948 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|24347681, gi|....

Description	E-value	Query Range	Subject Range
gi\|114047106, gi... - gi\|78690203\|ref\|ZP_00854853.1\| PKD [Shewanella sp. MR-7], gi\|78510355\|gb\|EAP23727.1\| PKD [Shewanella...	630.0	[0..1]	[948..1]
gi\|113884560, gi... - gi\|82495922\|ref\|ZP_00881494.1\| PKD [Shewanella sp. MR-4], gi\|82405963\|gb\|EAP46631.1\| PKD [Shewanella...	624.0	[0..1]	[948..1]
gi\|117612375, gi... - gi\|78687923\|ref\|ZP_00852655.1\| PKD [Shewanella sp. ANA-3], gi\|78504339\|gb\|EAP17900.1\| PKD [Shewanell...	621.0	[0..1]	[948..1]
gi\|68519266, gi\|... - gi\|68543063\|ref\|ZP_00582780.1\| PKD:Endonuclease/exonuclease/phosphatase [Shewanella baltica OS155], ...	614.0	[0..1]	[948..1]
gi\|160860495, gi... - gi\|160874973\|ref\|YP_001554289.1\| PKD domain-containing protein [Shewanella baltica OS195], gi\|160860...	613.0	[0..1]	[948..1]
gi\|77815805, gi\|... - gi\|77815805\|ref\|ZP_00815023.1\| PKD:Endonuclease/exonuclease/phosphatase [Shewanella putrefaciens CN-...	607.0	[0..1]	[948..1]
gi\|126638393, gi... - gi\|78368337\|ref\|ZP_00838574.1\| PKD:Endonuclease/exonuclease/phosphatase [Shewanella sp. PV-4], gi\|78...	583.0	[0..1]	[947..1]
gi\|68546987, gi\|... - gi\|68546987\|ref\|ZP_00586530.1\| PKD:Endonuclease/exonuclease/phosphatase [Shewanella amazonensis SB2B...	573.0	[0..1]	[944..1]
gi\|91715626, gi\|... - gi\|91793624\|ref\|YP_563275.1\| endonuclease/exonuclease/phosphatase [Shewanella denitrificans OS217], ...	556.0	[0..1]	[948..1]
gi\|69951825, gi\|... - gi\|69951825\|ref\|ZP_00639465.1\| PKD:Endonuclease/exonuclease/phosphatase [Shewanella frigidimarina NC...	546.0	[0..1]	[948..1]

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Predicted Domain #1

Region A:
Residues: [1-193]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFKHKTLLAL AISSVCGFAH GADNLIISEY VEGSGNNKAI ELYNPTSSSI DLSQYQLRFY  60
   61 FNGSTNVGST ISLNGTLAAG ATYVVADNDA SADILAVTNQ QSSASFFNGD DAIVLTHQNQ 120
  121 VIDSLGQVGV DPGSEWGSGD LSTQDNTLRR NPDQLIADPI IDDAVTFNTW LGFAKDDIAD 180
  181 LGKFSVGTPT DPV

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.85
Match:	1ufgA
Description:	Solution structure of immunoglobulin like domain of mouse nuclear lamin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.243556598547425	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [194-404]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPPPSSLACG EASTAIHVLQ GSTNASPLNG QTLVVEAIVV SNQEAGLKGI FVQMADNEAD  60
   61 NDPQTSEGVF VYTGTAPTGY VAGDRVRLKA KVTEYQGLTE LTTVADHKLC VAGQALPSAA 120
  121 VVTLPVNTSD DFEPFEGMRV RFSQDLVVNE VYKLGRYGEI LLGSRRHFIG TQVAAPGADA 180
  181 LAVTAANQKD SILLDDGLTA QNPDPVIFPA P

[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 #3

Region A:
Residues: [405-582]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GLSASNTVRV GDKATALTGV MHYGFNLYRI MPTESITFVA ENPRPQSPVL AEGGNLKVAS  60
   61 FNVLNYFNGD GQGSGFPTAR GANTLSEFER QKTKIISAMV GIGADVFGLM EIENDGFGAN 120
  121 SAIADLVAGL NTAVGENRYA YVIPKINGNN LSAIGTDAIT VGLIYRSDKV SPQGDARI

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.79
Match:	1dnkA
Description:	Deoxyribonuclease I
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [583-870]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSSTNSPLDE TGQPLFDDGK NRPMLTQAFV LNGSEEALVV AVNHLKSKGS ECAGDPDVND  60
   61 GQGNCNITRT RAATAAGQWI AAQYPEQGVL LIGDLNAYAK EDPLTALANT GFSELFAKLE 120
  121 KANAYSYVFS GESGQLDHAL ANAALVDKVV DVTEWHINTD EPRVLDYNEE FKTPTQVQDL 180
  181 YASDAYRSSD HDPVVISLLL EAEKVAPEAS FTKVVNGASV QFTSTSTDSD GQIVSAQWDF 240
  241 GDNSQGIGEA VSHTYAQSGD YLVTLTVTDN DGLSHSSSQM VTVVVENV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.69897
Match:	1l0qA
Description:	Surface layer protein
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [871-948]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKPPVAQIQR INLWLVDMFI STSYDTDGVI KQHKWKFDNG TRANGPVVLR LARRGEHTVE  60
   61 LTVKDNDKLT DTTTLTYR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	7.69897
Match:	2c26A
Description:	Structural basis for the promiscuous specificity of the carbohydrate- binding modules from the beta-sandwich super family
Matching Structure (courtesy of the PDB):

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: