YRC Public Data Repository - Protein Structure Prediction

Protein:	SYH_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	425 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 SYH_SHEON.

Description	E-value	Query Range	Subject Range
SYH_SHESW - Histidine--tRNA ligase OS=Shewanella sp. (strain W3-18-1) GN=hisS PE=3 SV=1 SYH_SHEPC - Histidine--tRNA ligase OS=Shewanella putrefaciens (strain CN-32 / ATCC BAA-453) GN=hisS PE=3 SV=1 gi\|124547110, gi... - gi\|124547110\|ref\|ZP_01706069.1\| histidyl-tRNA synthetase [Shewanella putrefaciens 200], gi\|124509584...	313.0	[0..1]	[425..1]
SYH_SHEDO - Histidine--tRNA ligase OS=Shewanella denitrificans (strain OS217 / ATCC BAA-1090 / DSM 15013) GN=his...	312.0	[0..1]	[424..1]
SYH_SALPA - Histidine--tRNA ligase OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=hisS PE=3 SV=1 SYH_SALPK - Histidine--tRNA ligase OS=Salmonella paratyphi A (strain AKU_12601) GN=hisS PE=3 SV=1 SYH_SALPA - Histidine--tRNA ligase OS=Salmonella paratyphi A GN=hisS PE=3 SV=1	310.0	[0..1]	[424..1]
gi\|16761437 - gi\|16761437\|ref\|NP_457054.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar T... gi\|213425332 - gi\|213425332\|ref\|ZP_03358082.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213649664 - gi\|213649664\|ref\|ZP_03379717.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213861387 - gi\|213861387\|ref\|ZP_03385857.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|214000624 - gi\|214000624\|ref\|ZP_03411359.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213028525 - gi\|213028525\|ref\|ZP_03342972.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213161949 - gi\|213161949\|ref\|ZP_03347659.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... SYH_SALTI - Histidine--tRNA ligase OS=Salmonella typhi GN=hisS PE=3 SV=3 gi\|29136491, gi\|... - gi\|29140866\|ref\|NP_804208.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar T... SYH_SALTI - Histidyl-tRNA synthetase OS=Salmonella typhi GN=hisS PE=3 SV=3	310.0	[0..1]	[424..1]
SYH_ALTMD - Histidine--tRNA ligase OS=Alteromonas mediterranea (strain DSM 17117 / CIP 110805 / LMG 28347 / Deep... SYH_ALTMD - Histidine--tRNA ligase OS=Alteromonas macleodii (strain DSM 17117 / Deep ecotype) GN=hisS1 PE=3 SV=1	309.0	[0..1]	[424..1]
SYH_SHEAM - Histidine--tRNA ligase OS=Shewanella amazonensis (strain ATCC BAA-1098 / SB2B) GN=hisS PE=3 SV=1	309.0	[0..1]	[424..1]
SYH_SHESR - Histidine--tRNA ligase OS=Shewanella sp. (strain MR-7) GN=hisS PE=3 SV=1	308.0	[0..1]	[425..1]
gi\|194470025, gi... - gi\|194470025\|ref\|ZP_03076009.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|195630851, gi... - gi\|195630851\|gb\|EDX49443.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ne... SYH_SALTY - Histidine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=hisS PE=1 ... gi\|199604382, gi... - gi\|200387284\|ref\|ZP_03213896.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... SYH_SALTY - Histidyl-tRNA synthetase OS=Salmonella typhimurium GN=hisS PE=1 SV=4 gi\|197263278, gi... - gi\|197263278\|ref\|ZP_03163352.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|167549458, gi... - gi\|205325473\|gb\|EDZ13312.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sa... gi\|205333643, gi... - gi\|205333643\|gb\|EDZ20407.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ke... gi\|167991830, gi... - gi\|205329927\|gb\|EDZ16691.1\| histidyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar 4,... SYH_SALPB - Histidine--tRNA ligase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=hisS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=hisS] [protein=histidyl-tRNA synthetase] [protein_id=YP_005238620.1] [location=complement(2706... SYH_SALTY - Histidine--tRNA ligase OS=Salmonella typhimurium GN=hisS PE=1 SV=4 SYH_SALPB - Histidyl-tRNA synthetase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=hisS PE=3 SV=1 SYH_SALPC - Histidine--tRNA ligase OS=Salmonella paratyphi C (strain RKS4594) GN=hisS PE=3 SV=1	308.0	[0..1]	[424..1]
SYH_SHESA - Histidine--tRNA ligase OS=Shewanella sp. (strain ANA-3) GN=hisS PE=3 SV=1	308.0	[0..1]	[425..1]
SYH_PHOPR - Histidine--tRNA ligase OS=Photobacterium profundum GN=hisS PE=3 SV=1 SYH_PHOPR - Histidine--tRNA ligase OS=Photobacterium profundum (strain SS9) GN=hisS PE=3 SV=1	308.0	[0..1]	[424..1]

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Predicted Domain #1

Region A:
Residues: [1-425]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKQIQAIRG MNDILPTQSP LWQKVEAVLR SSVAAYGYSE IRTPIVENTD LFKRSIGEVT  60
   61 DIVEKEMYTF EDRNGDSLTL RPEGTASTVR AGNEHGLLYN QEQRLWYMGP MFRHERPQKG 120
  121 RYRQFHQFGV EIYGIGSADI DAEVLMLSAR LWEKLGITEH VTLELNTLGD PAERAAYREA 180
  181 LIAFLEQHKD KLDEDSQRRM YSNPLRVLDS KDPQVQSILA DAPALMDYLG EESSQHFAQL 240
  241 RELLDAVGIQ YRVNSRLVRG LDYYNRTVFE WVTNSLGSQG TVLAGGRYDG LVAQLGGKET 300
  301 PAVGFAMGLE RIVLLLETLA LTQDIPAEVD VYVAAMGDNC LVEAIKVAQE LRSALPTLRV 360
  361 MSHCGGGNLK KQMKRADKSG AQVALLIGEE ELAEGVVTVK YLRNDNEQQR VARNALSAFL 420
  421 AELTK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	83.0
Match:	1kmmA
Description:	Histidyl-tRNA synthetase (HisRS), C-terminal domain; Histidyl-tRNA synthetase (HisRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming carbon-oxygen bonds	6.0520403280225	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	6.0520403280225	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	6.04138870254626	bayes_pls_golite062009
histidine-tRNA ligase activity	5.91343220471745	bayes_pls_golite062009
ligase activity	4.85905957427768	bayes_pls_golite062009
proline-tRNA ligase activity	3.10945929267718	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	2.76416144738864	bayes_pls_golite062009
threonine-tRNA ligase activity	2.18642354927	bayes_pls_golite062009
glycine-tRNA ligase activity	2.17047432052132	bayes_pls_golite062009
serine-tRNA ligase activity	2.07594942154162	bayes_pls_golite062009
alanine-tRNA ligase activity	1.82594054955281	bayes_pls_golite062009
lysine-tRNA ligase activity	1.72324031407565	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
catalytic activity	0.902495165806215	bayes_pls_golite062009
binding	0.704322679140529	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.00572514744734753	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: