YRC Public Data Repository - Protein Structure Prediction

Protein:	YDR341C
Organism:	Saccharomyces cerevisiae
Length:	607 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 YDR341C.

Description	E-value	Query Range	Subject Range
YDR341C - Arginyl-tRNA synthetase, proposed to be cytoplasmic but the authentic, non-tagged protein is detecte... SYRC_YEAST - Arginine--tRNA ligase, cytoplasmic OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YDR34...	0.0	[1..607]	[1..607]
SPBC25B2.09c - arginine-tRNA ligase SYRC_SCHPO - Probable arginine--tRNA ligase, cytoplasmic OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) G...	0.0	[1..607]	[1..618]
gi\|254793500, gi... - gi\|254793500\|ref\|YP_003078337.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14359], gi... SYR_ECO57 - Arginine--tRNA ligase OS=Escherichia coli O157:H7 GN=argS PE=3 SV=1 gi\|208810380, gi... - gi\|208810380\|ref\|ZP_03252256.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4206], gi\|2... gi\|195939580 - gi\|195939580\|ref\|ZP_03084962.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4024] gi\|189376028, gi... - gi\|189376028\|gb\|EDU94444.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC508], gi\|168801... gi\|168789744, gi... - gi\|189370702\|gb\|EDU89118.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC869], gi\|168789... gi\|209767330, gi... - pir\|\|B90952 arginine tRNA synthetase [imported] - Escherichia coli (strain O157:H7, substrain RIMD ... SYR_ECO5E - Arginine--tRNA ligase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=argS PE=3 SV=1 gi\|208818546, gi... - gi\|208818546\|ref\|ZP_03258866.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4042], gi\|2... gi\|13362054, gi\|... - gi\|15831840\|ref\|NP_310613.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|13362... gi\|208731065, gi... - gi\|208816722\|ref\|ZP_03257842.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4045], gi\|2... gi\|188017552, gi... - gi\|188017552\|gb\|EDU55674.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4113], gi\|16874... gi\|188999443, gi... - gi\|188999443\|gb\|EDU68429.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4076], gi\|16878... gi\|187768070, gi... - gi\|187768070\|gb\|EDU31914.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4196], gi\|16877... gi\|189360270, gi... - gi\|189360270\|gb\|EDU78689.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4486], gi\|16877... gi\|168757913, gi... - gi\|189355181\|gb\|EDU73600.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4401], gi\|16875...	0.0	[29..607]	[1..577]
SYR_ECOLI - Arginyl-tRNA synthetase (EC 6.1.1.19) (Arginine--tRNA ligase) (ArgRS) - Escherichia coli EG10071 - arginyl-tRNA synthetase / Arginine--tRNA ligase gi\|1736522, gi\|8... - gi\|89108716\|ref\|AP_002496.1\| arginyl-tRNA synthetase [Escherichia coli str. K-12 substr. W3110], gi\|... EG10071 - arginyl-tRNA synthetase / Arginine--tRNA ligase gi\|194417652, gi... - gi\|194434108\|ref\|ZP_03066377.1\| arginyl-tRNA synthetase [Shigella dysenteriae 1012], gi\|194417652\|gb... gi\|242377597, gi... - gi\|251785324\|ref\|YP_002999628.1\| hypothetical protein B21_01836 [Escherichia coli BL21], gi\|24237759... gi\|188488834, gi... - gi\|188493635\|ref\|ZP_03000905.1\| arginyl-tRNA synthetase [Escherichia coli 53638], gi\|188488834\|gb\|ED... SYR_ECOBW - Arginine--tRNA ligase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=argS PE=3 SV=1 SYR_ECODH - Arginine--tRNA ligase OS=Escherichia coli (strain K12 / DH10B) GN=argS PE=3 SV=1 gi\|254161936, gi... - gi\|254161936\|ref\|YP_003045044.1\| arginyl-tRNA synthetase [Escherichia coli B str. REL606], gi\|253973... gi\|253324211, gi... - gi\|254288724\|ref\|YP_003054472.1\| arginyl-tRNA synthetase [Escherichia coli BL21(DE3)], gi\|253978031\|...	0.0	[29..607]	[1..577]
gi\|12515938, gi\|... - gi\|15802288\|ref\|NP_288313.1\| arginyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|12515938\|... gi\|25293284 - gi\|25293284\|pir\|\|F85800 arginine tRNA synthetase [imported] - Escherichia coli (strain O157:H7, sub...	0.0	[29..607]	[1..577]
gi\|167994213, gi... - gi\|205327860\|gb\|EDZ14624.1\| arginyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar 4,[... SYR_SALTS - Arginine--tRNA ligase OS=Salmonella typhimurium (strain SL1344) GN=argS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=argS] [protein=arginyl-tRNA synthetase] [protein_id=YP_005237875.1] [location=2014001..2015734... SYR_SALTY - Arginyl-tRNA synthetase OS=Salmonella typhimurium GN=argS PE=3 SV=2 SYR_SALTY - Arginine--tRNA ligase OS=Salmonella typhimurium GN=argS PE=3 SV=1 SYR_SALTY - Arginine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=argS PE=3 S...	0.0	[29..607]	[1..577]
gi\|7437755 - pir\|\|S75986 hypothetical protein - Synechocystis sp. (strain PCC 6803) SYR_SYNY3 - Arginyl-tRNA synthetase OS=Synechocystis sp. (strain ATCC 27184 / PCC 6803 / N-1) GN=argS PE=3 SV=1 SYR_SYNY3 - Arginine--tRNA ligase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=argS PE=3 SV=1	0.0	[30..607]	[3..584]
SYR_CLOPE - Arginine--tRNA ligase OS=Clostridium perfringens (strain 13 / Type A) GN=argS PE=3 SV=1 SYR_CLOPE - Arginine--tRNA ligase OS=Clostridium perfringens GN=argS PE=3 SV=1	0.0	[34..607]	[2..565]

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Predicted Domain #1

Region A:
Residues: [1-115]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MASTANMISQ LKKLSIAEPA VAKDSHPDVN IVDLMRNYIS QELSKISGVD SSLIFPALEW  60
   61 TNTMERGDLL IPIPRLRIKG ANPKDLAVQW AEKFPCGDFL EKVEANGPFI QFFFN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10178.0
Match:	1bs2A_
Description:	Arginyl-tRNA synthetase (ArgRS); Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
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
ligase activity	6.11211476973434	bayes_pls_golite062009
arginine-tRNA ligase activity	5.72854650987135	bayes_pls_golite062009
isoleucine-tRNA ligase activity	3.76808520367507	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
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

Predicted Domain #2

Region A:
Residues: [116-136]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PQFLAKLVIP DILTRKEDYG S

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [415-607]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VVFLDNILEE TKEKMHEVMK KNENKYAQIE HPEEVADLVG ISAVMIQDMQ GKRINNYEFK  60
   61 WERMLSFEGD TGPYLQYAHS RLRSVERNAS GITQEKWINA DFSLLKEPAA KLLIRLLGQY 120
  121 PDVLRNAIKT HEPTTVVTYL FKLTHQVSSC YDVLWVAGQT EELATARLAL YGAARQVLYN 180
  181 GMRLLGLTPV ERM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10178.0
Match:	1bs2A_
Description:	Arginyl-tRNA synthetase (ArgRS); Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [137-191]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CKLVENKKVI IEFSSPNIAK PFHAGHLRST IIGGFLANLY EKLGWEVIRM NYLGD

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [272-414]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FSIEKYIDTY ARLNIKYDVY SGESQVSKES MLKAIDLFKE KGLTHEDKGA VLIDLTKFNK  60
   61 KLGKAIVQKS DGTTLYLTRD VGAAMDRYEK YHFDKMIYVI ASQQDLHAAQ FFEILKQMGF 120
  121 EWAKDLQHVN FGMVQGMSTR KGT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10178.0
Match:	1bs2A_
Description:	Arginyl-tRNA synthetase (ArgRS); Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [192-271]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WGKQFGLLAV GFERYGNEEA LVKDPIHHLF DVYVRINKDI EEEGDSIPLE QSTNGKAREY  60
   61 FKRMEDGDEE ALKIWKRFRE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10178.0
Match:	1bs2A_
Description:	Arginyl-tRNA synthetase (ArgRS); Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
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: