YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24371939, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	1515 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|24371939, gi|....

Description	E-value	Query Range	Subject Range
gi\|117614593, gi... - gi\|78685894\|ref\|ZP_00850668.1\| PAS:GGDEF [Shewanella sp. ANA-3], gi\|78506392\|gb\|EAP19911.1\| PAS:GGDE...	978.0	[0..5]	[1506..2]
gi\|78689339, gi\|... - gi\|78689339\|ref\|ZP_00854002.1\| PAS:GGDEF [Shewanella sp. MR-7], gi\|78511274\|gb\|EAP24633.1\| PAS:GGDEF...	966.0	[0..5]	[1506..2]
gi\|113886645, gi... - gi\|113971961\|ref\|YP_735754.1\| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s) [Shewanel...	964.0	[0..5]	[1506..2]
gi\|160862770, gi... - gi\|160877248\|ref\|YP_001556564.1\| diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s...	956.0	[0..5]	[1510..2]
gi\|68540985, gi\|... - gi\|68540985\|ref\|ZP_00580733.1\| PAS:GGDEF [Shewanella baltica OS155], gi\|68521370\|gb\|EAN44864.1\| PAS:...	951.0	[0..5]	[1510..2]
gi\|77813482, gi\|... - gi\|77813482\|ref\|ZP_00812757.1\| PAS:GGDEF [Shewanella putrefaciens CN-32], gi\|77811573\|gb\|EAO95944.1\|...	940.0	[0..15]	[1506..16]
gi\|120560667, gi... - gi\|82743818\|ref\|ZP_00906440.1\| PAS:GGDEF [Shewanella sp. W3-18-1], gi\|82718826\|gb\|EAP53770.1\| PAS:GG...	939.0	[0..15]	[1506..16]
gi\|114332895, gi... - gi\|69949915\|ref\|ZP_00637879.1\| PAS:GGDEF [Shewanella frigidimarina NCIMB 400], gi\|69166539\|gb\|EAN755...	894.0	[0..43]	[1505..15]
gi\|119776430, gi... - gi\|68545296\|ref\|ZP_00584847.1\| PAS:GGDEF [Shewanella amazonensis SB2B], gi\|68517164\|gb\|EAN40874.1\| P...	876.0	[0..17]	[1506..1]
gi\|69942021, gi\|... - gi\|91794771\|ref\|YP_564422.1\| GGDEF domain-containing protein [Shewanella denitrificans OS217], gi\|91...	855.0	[0..17]	[1505..14]

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Predicted Domain #1

Region A:
Residues: [1-587]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLGFIGVALS QPILRLIFSV LCIISFFTVP STGLALPLNA ANTQLKFEHI RSEDGLNQNT  60
   61 ITSLFMDSAG MLWIGTQDGL HSYNGYNFNL FIHSPNDPKS ISESYVSDII QDAEGYLWVG 120
  121 SFSQGINRLD LKTGTFKRFG VEQGLTDPRV TKLNIVGNTL WIGTQSGLFS FSTRTNRLTK 180
  181 VSLGTSIEPY ITSLANVDNT YLLAGTKGSG TFAVSANTIT RLNIPQDAIA YQVKANSSRA 240
  241 ITLALGNQLW HYDLATQQGK ALWQADKNIP YIKDFIQTPE GQFWVVGPEA GLIQLEREAD 300
  301 KFVATYHQYD MKRTNSISEN NILSLLEDPF GNLWLGASYS GLNKINTRRQ YFQHLFEYTN 360
  361 ELPLQSNNVR TIYRSQDQAL WIGTEGAGLK RLAVNSTTFE HYTSFFAKAL GQQTQHLNLI 420
  421 LRSIVQDKQG ILWFASNYGL GRLTPNGEFN LLNVADSRDT SAEANYIRSL ELDNQNRLWV 480
  481 ATSHALYRKS SVNDEFTPVP LTGIENFHPI QNLLLTLKSD KNILWIGSLN GLVKLDMQTG 540
  541 HGEVFYHDPH DKNSIINNRI RDIFVASNGD TWFATHGGIS RLPAQAL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.69897
Match:	2cn3A
Description:	No description for 2cn3A was found.

Predicted Domain #2

Region A:
Residues: [588-839]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPIFSDYTRE QGLPSDTIYA LLEDDDNHIW FSSNAGIGKL NPHNGKIINF NEQEGLQALE  60
   61 FNGGVKLKDS DGDLWFGGIN GINRFNPKTL PNQRSEARVA LTAYKIAGQK QTILDLSHPP 120
  121 QIVMNYADQL ISFEVTSLDF SYPGKNRFSY FLEGFDNQWH DLPTGNEITF TNIDPGNYLL 180
  181 HVRHSLEYNS KGNYALLVNL TVKAPFYRTP FAYAFYVLFT LVSMGWALRW RKQKRSQQQE 240
  241 FETSIRASEE RL

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	0.979
Match:	1fg9C
Description:	Interferon-gamma receptor alpha chain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.1116076626051	bayes_pls_golite062009
protein binding	1.76783430571442	bayes_pls_golite062009
signal transducer activity	1.32097616022208	bayes_pls_golite062009
molecular transducer activity	1.32097616022208	bayes_pls_golite062009
receptor activity	1.12145080973562	bayes_pls_golite062009
transmembrane receptor activity	1.07650218318904	bayes_pls_golite062009
cytokine binding	0.56260777446515	bayes_pls_golite062009
cytokine receptor activity	0.175513940405093	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [840-933]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KLALWASGDG MWDWNIQEQQ VYRTNTDIAV PQWNGHQLLH DNAHPEDRER FKYELTEHLQ  60
   61 GRSPFFEVEY RIEHSPGKWV WILERGKVVE TNAQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.522879
Match:	1x0oA
Description:	human ARNT C-terminal PAS domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [934-1082]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ERPIRMTGTT RNITSRKLIE NELVLSSQVL NSMNEAVVVA GLDYRIRSVN PAFSAITGYS  60
   61 EGQISDKFLI HLAYSRQQRD LFNSIEQQLL RHKHWAGEIW IRNKARRAIL VWLEINQVID 120
  121 VKGETSHFVA VFTDITERKK AEEDLRFLA

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	6.03
Match:	1v9yA
Description:	Crystal Structure of the heme PAS sensor domain of Ec DOS (ferric form)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.11810529315597	bayes_pls_golite062009
protein binding	1.35116033536319	bayes_pls_golite062009
transcription regulator activity	0.972708865275432	bayes_pls_golite062009
two-component response regulator activity	0.798874220332901	bayes_pls_golite062009
DNA binding	0.737759263759466	bayes_pls_golite062009
nucleic acid binding	0.626552612035066	bayes_pls_golite062009
signal transducer activity	0.386333593205398	bayes_pls_golite062009
molecular transducer activity	0.386333593205398	bayes_pls_golite062009
transcription factor activity	0.233622464289646	bayes_pls_golite062009
protein dimerization activity	0.00745761267362077	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [1083-1244]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SFDTLTGLPN RTLFQDRLNH AISQAHRSNN IVALLFLDLD RFKHINDSMG HHIGDLLLKA  60
   61 VAHRLQSAVR EGDTVARLGG DEFTIILEGV AKTKAATLIS EKVLKAFQAP FLLDDKSLNI 120
  121 STSIGISLYP NDAKDVDSLI KFADTAMYHA KALGRNNFQF YT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.39794
Match:	1w25A
Description:	Response regulator PleD in complex with c-diGMP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
two-component response regulator activity	1.88327307771701	bayes_pls_golite062009
signal transducer activity	1.7438872646629	bayes_pls_golite062009
molecular transducer activity	1.7438872646629	bayes_pls_golite062009
two-component sensor activity	0.300567386918242	bayes_pls_golite062009
protein histidine kinase activity	0.276515698624029	bayes_pls_golite062009
binding	0.145546551776301	bayes_pls_golite062009
cyclase activity	0.135549728707442	bayes_pls_golite062009
phosphotransferase activity, nitrogenous group as acceptor	0.132981161220456	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [1245-1515]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NKLNEMATRH MQLETGLKQA ISHNELSLVY QPKFCLRNGS LTGLEALLRW QHSELGPISP  60
   61 AEFIPLAEET GMINQIGHWV INQSCQQLAE WNELGFSDIS MAVNLSARQL KADIISTIEV 120
  121 ALAVSGLPAK ALELELTESM IMGNPQESVN ILSKLKALGL TIAVDDFGTG YSSLSYLKRF 180
  181 PIDTLKIDRE FVRDITNDPD DAAITSAIIA LAHSLELNVV AEGVETQEQL NFLALQGCDQ 240
  241 VQGFLLSKPL SAQDCQTLLQ QRTKDRQDVK K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	77.69897
Match:	2r6oA
Description:	No description for 2r6oA was found.

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:

Predicted functions: