YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16759040
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. CT18
Length:	944 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|16759040.

Description	E-value	Query Range	Subject Range
SYI_SALTY - Isoleucyl-tRNA synthetase OS=Salmonella typhimurium GN=ileS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=ileS] [protein=isoleucyl-tRNA synthetase] [protein_id=YP_005235688.1] [location=53855..56689] SYI_SALTY - Isoleucine--tRNA ligase OS=Salmonella typhimurium GN=ileS PE=3 SV=1 SYI_SALTY - Isoleucine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=ileS PE=3...	0.0	[1..944]	[1..944]
SYI_SALG2 - Isoleucine--tRNA ligase OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=ileS PE=3 SV=1 SYI_SALCH - Isoleucine--tRNA ligase OS=Salmonella choleraesuis GN=ileS PE=3 SV=2 SYI_SALEP - Isoleucine--tRNA ligase OS=Salmonella enteritidis PT4 (strain P125109) GN=ileS PE=3 SV=1 SYI_SALCH - Isoleucine--tRNA ligase OS=Salmonella choleraesuis (strain SC-B67) GN=ileS PE=3 SV=2 SYI_SALCH - Isoleucyl-tRNA synthetase OS=Salmonella choleraesuis GN=ileS PE=3 SV=2	0.0	[1..944]	[1..944]
gi\|62126243, gi\|... - gi\|62178610\|ref\|YP_215027.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar ... gi\|224581883, gi... - gi\|224581883\|ref\|YP_002635681.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica sero... gi\|199604342, gi... - gi\|200387244\|ref\|ZP_03213856.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica serov... gi\|198245825, gi... - gi\|198245825\|ref\|YP_002214000.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica sero... gi\|197248475, gi... - gi\|197248475\|ref\|YP_002145027.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica sero... gi\|194447430, gi... - gi\|194447430\|ref\|YP_002044012.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica sero... gi\|205337443, gi... - gi\|205337443\|gb\|EDZ24207.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar H... gi\|167550782, gi... - gi\|205324429\|gb\|EDZ12268.1\| isoleucyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar S...	0.0	[1..944]	[13..956]
SYI_SHIFL - Isoleucine--tRNA ligase OS=Shigella flexneri GN=ileS PE=3 SV=1 gi\|24050221, gi\|... - gi\|24111471\|ref\|NP_705981.1\| isoleucyl-tRNA synthetase [Shigella flexneri 2a str. 301], gi\|24050221\|...	0.0	[1..944]	[1..938]
SYI_SALPA - Isoleucine--tRNA ligase OS=Salmonella paratyphi A GN=ileS PE=3 SV=1 SYI_SALPK - Isoleucine--tRNA ligase OS=Salmonella paratyphi A (strain AKU_12601) GN=ileS PE=3 SV=1 SYI_SALPA - Isoleucine--tRNA ligase OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=ileS PE=3 SV=1	0.0	[1..944]	[1..944]
SYI_SHIBS - Isoleucine--tRNA ligase OS=Shigella boydii serotype 4 (strain Sb227) GN=ileS PE=3 SV=1	0.0	[1..944]	[1..938]
SYI_ECO55 - Isoleucine--tRNA ligase OS=Escherichia coli (strain 55989 / EAEC) GN=ileS PE=3 SV=1 gi\|89106910, gi\|... - gi\|89106910\|ref\|AP_000690.1\| isoleucyl-tRNA synthetase [Escherichia coli str. K-12 substr. W3110], g... SYI_ECODH - Isoleucine--tRNA ligase OS=Escherichia coli (strain K12 / DH10B) GN=ileS PE=3 SV=1 SYI_ECOSE - Isoleucine--tRNA ligase OS=Escherichia coli (strain SE11) GN=ileS PE=3 SV=1 SYI_ECO8A - Isoleucine--tRNA ligase OS=Escherichia coli O8 (strain IAI1) GN=ileS PE=3 SV=1 gi\|193070965, gi... - gi\|75234163\|ref\|ZP_00718567.1\| COG0060: Isoleucyl-tRNA synthetase [Escherichia coli E110019], gi\|193... gi\|193066215, gi... - gi\|75255681\|ref\|ZP_00727447.1\| COG0060: Isoleucyl-tRNA synthetase [Escherichia coli E22], gi\|1930662... gi\|190901059, gi... - gi\|75227856\|ref\|ZP_00714566.1\| COG0060: Isoleucyl-tRNA synthetase [Escherichia coli B7A], gi\|1911688... EG10492 - isoleucyl-tRNA synthetase / Isoleucine--tRNA ligase SYI_ECOLI - Isoleucyl-tRNA synthetase (EC 6.1.1.5) (Isoleucine--tRNA ligase) (IleRS) - Escherichia coli EG10492 - isoleucyl-tRNA synthetase / Isoleucine--tRNA ligase SYI_ECOBW - Isoleucine--tRNA ligase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=ileS PE=3 SV=1 SYI_SHISS - Isoleucine--tRNA ligase OS=Shigella sonnei (strain Ss046) GN=ileS PE=3 SV=1	0.0	[1..944]	[1..938]
SYI_ESCF3 - Isoleucine--tRNA ligase OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=i... SYI_ECO24 - Isoleucine--tRNA ligase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=ileS PE=3 SV=1	0.0	[1..944]	[1..938]
SYI_SHIB3 - Isoleucine--tRNA ligase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=ileS PE=3 SV=...	0.0	[1..944]	[1..938]
SYI_SHIDS - Isoleucine--tRNA ligase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=ileS PE=3 SV=1	0.0	[1..944]	[1..938]

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Predicted Domain #1

Region A:
Residues: [1-944]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDYKSTLNL PETGFPMRGD LAKREPGMLA RWTDDDLYGI IRAAKKGKKT FILHDGPPYA  60
   61 NGSIHIGHSV NKILKDIIVK SKGLSGFDSP YVPGWDCHGL PIELKVEQEF GKPGEKFTAA 120
  121 EFRAKCREYA ATQVDGQRKD FIRLGVLGDW SHPYLTMDFK TEANIIRALG RIIKNGHLHK 180
  181 GAKPVHWCVD CRSALAEAEV EYYDKTSPSI DVAFRAVDQD AVKAKFGLPG VSGPVSLVIW 240
  241 TTTPWTLPAN RAISLAPDFD YALVQIDGQA VILAKDLVES VIQRIGAAEY TILGTVKGAE 300
  301 LELLRFTHPF MGFDVPAILG DHVTLDAGTG AVHTAPGHGP DDYVIGQKYG LETANPVGPD 360
  361 GAYLPGTYPT LDGVNVFKAN DIVIELLKEK GALLHVEKMQ HSYPCCWRHK TPIIFRATPQ 420
  421 WFVSMDKEGL RQQSLKEIKG VQWIPDWGQA RIESMVANRP DWCISRQRTW GVPMSLFVHK 480
  481 ETQELLPIER TLAAMEEVAK RVEVDGIQAW WDLDPKEILG EDADQYEKVP DTLDVWFDSG 540
  541 STSYSVVDAR PEFAGHAADM YLEGSDQHRG WFMSSLMISV AMKGKAPYRQ VLTHGFTVDG 600
  601 QGRKMSKSIG NTVSPQDVMN KLGADILRLW VASTDYTGEM AVSDEILKRA ADSYRRIRNT 660
  661 ARFLLANLNG FNPATDMVKP EEMVVLDRWA VGCAKTAQQE ILKAYEAYDF HEVVQRLMRF 720
  721 CSVEMGSFYL DIIKDRQYTA KADSVARRSC QTALYHIAEA LVRWMAPIMS FTADEIWGYL 780
  781 PGEREKYVFT GEWYDGLFGL EENEEFNDAF WDDVRYIKDQ VNKELENQKA NGIKSNLEAK 840
  841 VTLKYADDAN GTIKKLKLLG EEVRFIFITS QFVISEQAGG IDDENIQYNA GNTTVQAVVT 900
  901 RAEGDKCPRC WHYTTDVGKV AEHADICGRC VSNIAGNGEQ RKFA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1ffyA
Description:	Isoleucyl-tRNA synthetase (IleRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	7.16276509815667	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.16276509815667	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.13957775963187	bayes_pls_golite062009
valine-tRNA ligase activity	7.13767629265822	bayes_pls_golite062009
leucine-tRNA ligase activity	7.03538514482698	bayes_pls_golite062009
isoleucine-tRNA ligase activity	6.38633897147986	bayes_pls_golite062009
ligase activity	6.11211476973434	bayes_pls_golite062009
glutamate-tRNA ligase activity	2.63681738794687	bayes_pls_golite062009
methionine-tRNA ligase activity	2.56893064485672	bayes_pls_golite062009
catalytic activity	2.37674226834122	bayes_pls_golite062009
tyrosine-tRNA ligase activity	1.88984817882585	bayes_pls_golite062009
arginine-tRNA ligase activity	1.50161401062914	bayes_pls_golite062009
tryptophan-tRNA ligase activity	1.14187887833901	bayes_pls_golite062009
cysteine-tRNA ligase activity	0.844943947059557	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.625793556381714	bayes_pls_golite062009
binding	0.485102284225571	bayes_pls_golite062009
nucleic acid binding	0.449504767632354	bayes_pls_golite062009
nucleotidyltransferase activity	0.2293846471193	bayes_pls_golite062009
glutamine-tRNA ligase activity	0.118292082006187	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: