YRC Public Data Repository - Protein Structure Prediction

Protein:	EX7L_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	445 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 EX7L_SHEON.

Description	E-value	Query Range	Subject Range
gi\|167991817, gi... - gi\|205329864\|gb\|EDZ16628.1\| exodeoxyribonuclease VII, large subunit [Salmonella enterica subsp. ente... EX7L_SALTY - Exodeoxyribonuclease 7 large subunit OS=Salmonella typhimurium GN=xseA PE=3 SV=1 EX7L_SALTY - Exodeoxyribonuclease 7 large subunit OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)... EX7L_SALTY - Exodeoxyribonuclease 7 large subunit OS=Salmonella typhimurium GN=xseA PE=3 SV=1 gi\|197240351, gi... - gi\|197262096\|ref\|ZP_03162170.1\| exodeoxyribonuclease VII, large subunit [Salmonella enterica subsp. ... lcl\|NC_016856.1_... - [gene=xseA] [protein=exodeoxyribonuclease VII large subunit] [protein_id=YP_005238605.1] [location=2...	557.0	[0..1]	[444..2]
EX7L_SALPA - Exodeoxyribonuclease 7 large subunit OS=Salmonella paratyphi A GN=xseA PE=3 SV=1 EX7L_SALPK - Exodeoxyribonuclease 7 large subunit OS=Salmonella paratyphi A (strain AKU_12601) GN=xseA PE=3 SV=1 EX7L_SALPA - Exodeoxyribonuclease 7 large subunit OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=xseA P...	555.0	[0..1]	[444..2]
EX7L_SALTI - Exodeoxyribonuclease 7 large subunit OS=Salmonella typhi GN=xseA PE=3 SV=1 gi\|29136499, gi\|... - gi\|29140874\|ref\|NP_804216.1\| exodeoxyribonuclease VII large subunit [Salmonella enterica subsp. ente... gi\|16761429 - gi\|16761429\|ref\|NP_457046.1\| exodeoxyribonuclease VII large subunit [Salmonella enterica subsp. ente... EX7L_SALTI - Exodeoxyribonuclease 7 large subunit OS=Salmonella typhi GN=xseA PE=3 SV=1 gi\|213421227 - gi\|213421227\|ref\|ZP_03354293.1\| exodeoxyribonuclease VII large subunit [Salmonella enterica subsp. e... gi\|213647445 - gi\|213647445\|ref\|ZP_03377498.1\| exodeoxyribonuclease VII large subunit [Salmonella enterica subsp. e... gi\|213852549 - gi\|213852549\|ref\|ZP_03382081.1\| exodeoxyribonuclease VII large subunit [Salmonella enterica subsp. e...	554.0	[0..1]	[444..2]
gi\|124498698, gi... - gi\|124531252\|ref\|ZP_01701594.1\| exodeoxyribonuclease VII, large subunit [Escherichia coli B], gi\|124... EX7L_ECOHS - Exodeoxyribonuclease 7 large subunit OS=Escherichia coli O9:H4 (strain HS) GN=xseA PE=3 SV=1 EX7L_ECOLC - Exodeoxyribonuclease 7 large subunit OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=x...	552.0	[0..8]	[444..9]
gi\|30042156, gi\|... - gi\|30063901\|ref\|NP_838072.1\| exodeoxyribonuclease VII large subunit [Shigella flexneri 2a str. 2457T... EX7L_SHIFL - Exodeoxyribonuclease 7 large subunit OS=Shigella flexneri GN=xseA PE=3 SV=4 gi\|56383673, gi\|... - gi\|56480122\|ref\|NP_708348.2\| exodeoxyribonuclease VII large subunit [Shigella flexneri 2a str. 301],...	551.0	[0..8]	[444..9]
EX7L_VIBPA - Exodeoxyribonuclease 7 large subunit OS=Vibrio parahaemolyticus GN=xseA PE=3 SV=1 EX7L_VIBPA - Exodeoxyribonuclease 7 large subunit OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)... gi\|153838535, gi... - gi\|153838535\|ref\|ZP_01991202.1\| exodeoxyribonuclease VII, large subunit [Vibrio parahaemolyticus AQ3...	550.0	[0..1]	[441..2]
EX7L_SHIBS - Exodeoxyribonuclease 7 large subunit OS=Shigella boydii serotype 4 (strain Sb227) GN=xseA PE=3 SV=1	550.0	[0..8]	[444..9]
gi\|188491415, gi... - gi\|75515849\|ref\|ZP_00737984.1\| COG1570: Exonuclease VII, large subunit [Escherichia coli 53638], gi\|...	550.0	[0..8]	[444..9]
EX7L_SHIF8 - Exodeoxyribonuclease 7 large subunit OS=Shigella flexneri serotype 5b (strain 8401) GN=xseA PE=3 SV=...	550.0	[0..8]	[444..9]
EX7L_SHISS - Exodeoxyribonuclease 7 large subunit OS=Shigella sonnei (strain Ss046) GN=xseA PE=3 SV=1 gi\|192958322, gi... - gi\|75237745\|ref\|ZP_00721761.1\| COG1570: Exonuclease VII, large subunit [Escherichia coli E110019], g... gi\|75229159, gi\|... - gi\|75229159\|ref\|ZP_00715731.1\| COG1570: Exonuclease VII, large subunit [Escherichia coli B7A], gi\|19... EX7L_SHIB3 - Exodeoxyribonuclease 7 large subunit OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=... EX7L_ECO8A - Exodeoxyribonuclease 7 large subunit OS=Escherichia coli O8 (strain IAI1) GN=xseA PE=3 SV=1 EX7L_ECO55 - Exodeoxyribonuclease 7 large subunit OS=Escherichia coli (strain 55989 / EAEC) GN=xseA PE=3 SV=1	550.0	[0..8]	[444..9]

Back

Predicted Domain #1

Region A:
Residues: [1-102]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQVPKNNIYT VSRLNGEVRQ ILEGQLGKIW LNGEISNFST PSSGHWYLTL KDHFSQIRCA  60
   61 MFKGRNQSVS FKPVNGQQVI VKGAISVYEP RGDYQLLIES ML

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	11.026872
Match:	PF01336.16
Description:	No description for PF01336.16 was found.

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.551	0.229	DNA catabolic process	b.60.1	Lipocalins
View	Download	0.515	0.035	DNA catabolic process	a.73.1	Retrovirus capsid protein, N-terminal core domain
View	Download	0.577	0.022	DNA catabolic process	c.23.13	Type II 3-dehydroquinate dehydratase
View	Download	0.579	N/A	N/A	d.105.1	Clathrin adaptor appendage, alpha and beta chain-specific domain
View	Download	0.544	N/A	N/A	d.105.1	Clathrin adaptor appendage, alpha and beta chain-specific domain

Predicted Domain #2

Region A:
Residues: [103-250]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PAGDGLLAQQ FEALKMKLAA LGLFAADTKR ALPKNIQRIG VITSPTGAAI RDVLHVLARR  60
   61 DPSIEVIIYP TQVQGENADI NICQAINIAN QRLEVDVLLL TRGGGSLEDL WCFNSEALAH 120
  121 TIYNSALPIV SAVGHEVDTT ISDYVADV

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [251-445]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RAPTPSAGAE LLSQDSDNKS QRLATVLARL KQSASHYQLK QERRLSLLEH RLQRLDPKRT  60
   61 LQQFEQRFDE MQLRLEAALT NKLHGLSRRQ QQLASRLEQQ SPKHKLALEA NRLSYLATRL 120
  121 QDAMQDKLSH SGQRIKYVAH QLETVSPLAT LSRGYSITTD VNGAVITSAS QISLGDTITT 180
  181 QLSNERLMST VTRLP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.30103
Match:	1rw6A
Description:	human APP core domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	1.7871201389646	bayes_pls_golite062009
protein binding	1.17121102134656	bayes_pls_golite062009
nucleic acid binding	0.521010838154847	bayes_pls_golite062009
DNA binding	0.440048609314838	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: