YRC Public Data Repository - Protein Structure Prediction

Protein:	SYFB_ECOLI
Organism:	Escherichia coli
Length:	795 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 SYFB_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|77975256, gi\|... - gi\|77975256\|ref\|ZP_00830792.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia frederik...	874.0	[0..1]	[795..1]
gi\|153950288, gi... - gi\|77629408\|ref\|ZP_00791994.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia pseudotu...	871.0	[0..1]	[795..1]
gi\|170024064, gi... - gi\|170024064\|ref\|YP_001720569.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pseudotuberculo... SYFB_YERPS - Phenylalanine--tRNA ligase beta chain OS=Yersinia pseudotuberculosis GN=pheT PE=3 SV=1 gi\|186895717, gi... - gi\|186895717\|ref\|YP_001872829.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pseudotuberculo... SYFB_YERPS - Phenylalanine--tRNA ligase beta subunit OS=Yersinia pseudotuberculosis serotype I (strain IP32953) G...	870.0	[0..1]	[795..1]
gi\|45436868, gi\|... - gi\|45442005\|ref\|NP_993544.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pestis biovar Micro...	869.0	[0..1]	[795..1]
gi\|16122648, gi\|... - gi\|218929516\|ref\|YP_002347391.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pestis CO92], g... gi\|162351829, gi... - gi\|77635560\|ref\|ZP_00797643.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia pestis A... gi\|22125802, gi\|... - gi\|22125802\|ref\|NP_669225.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pestis KIM], gi\|219... gi\|108779680, gi... - gi\|108807767\|ref\|YP_651683.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pestis Antiqua], g... gi\|229902355, gi... - gi\|229902355\|ref\|ZP_04517475.1\| phenylalanine tRNA synthetase, beta subunit [Yersinia pestis Nepal51... SYFB_YERPE - Phenylalanine--tRNA ligase beta subunit OS=Yersinia pestis GN=pheT PE=3 SV=1 gi\|165939500, gi... - gi\|89105340\|ref\|ZP_01177861.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia pestis b... gi\|166211101, gi... - gi\|166211101\|ref\|ZP_02237136.1\| phenylalanyl-tRNA synthetase, beta subunit [Yersinia pestis biovar A... gi\|167400839, gi... - gi\|167400839\|ref\|ZP_02306345.1\| phenylalanyl-tRNA synthetase, beta subunit [Yersinia pestis biovar A... gi\|166958991, gi... - gi\|167422179\|ref\|ZP_02313932.1\| phenylalanyl-tRNA synthetase, beta subunit [Yersinia pestis biovar O... gi\|149292077, gi... - gi\|149365664\|ref\|ZP_01887699.1\| phenylalanyl-tRNA synthetase beta chain [Yersinia pestis CA88-4125],... gi\|167424893, gi... - gi\|167424893\|ref\|ZP_02316646.1\| phenylalanyl-tRNA synthetase, beta subunit [Yersinia pestis biovar M... gi\|229837953, gi... - gi\|229837953\|ref\|ZP_04458112.1\| phenylalanine tRNA synthetase, beta subunit [Yersinia pestis biovar ... gi\|229898514, gi... - gi\|229898514\|ref\|ZP_04513659.1\| phenylalanine tRNA synthetase, beta subunit [Yersinia pestis biovar ... gi\|165920506, gi... - gi\|165927451\|ref\|ZP_02223283.1\| phenylalanyl-tRNA synthetase, beta subunit [Yersinia pestis biovar O... gi\|165989279, gi... - gi\|166011814\|ref\|ZP_02232712.1\| phenylalanyl-tRNA synthetase, beta subunit [Yersinia pestis biovar A...	868.0	[0..1]	[795..1]
gi\|238791697, gi... - gi\|77980149\|ref\|ZP_00835564.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia intermed...	868.0	[0..1]	[795..1]
gi\|238718807, gi... - gi\|77962047\|ref\|ZP_00825873.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia mollaret...	868.0	[0..1]	[795..1]
gi\|90439217, gi\|... - gi\|90579643\|ref\|ZP_01235452.1\| phenylalanyl-tRNA synthetase beta subunit [Vibrio angustum S14], gi\|9...	866.0	[0..1]	[795..1]
gi\|227081392, gi... - gi\|227081392\|ref\|YP_002809943.1\| phenylalanyl-tRNA synthetase, beta chain [Vibrio cholerae M66-2], g... SYFB_VIBCH - Phenylalanine--tRNA ligase beta subunit OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor I... gi\|126518604, gi... - gi\|229511143\|ref\|ZP_04400622.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae B33], gi\|22... gi\|229505187, gi... - gi\|229505187\|ref\|ZP_04394697.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae BX 330286],... gi\|229518261, gi... - gi\|229518261\|ref\|ZP_04407705.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae RC9], gi\|22... gi\|229608207, gi... - gi\|229608207\|ref\|YP_002878855.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae MJ-1236], ... SYFB_VIBCH - Phenylalanine--tRNA ligase beta chain OS=Vibrio cholerae GN=pheT PE=3 SV=1 gi\|254844050, gi... - gi\|75829638\|ref\|ZP_00758934.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Vibrio cholerae M... gi\|121730320, gi... - gi\|75814003\|ref\|ZP_00744667.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Vibrio cholerae V...	863.0	[0..1]	[795..1]
gi\|89049887, gi\|... - gi\|89074400\|ref\|ZP_01160882.1\| phenylalanyl-tRNA synthetase beta subunit [Photobacterium sp. SKA34],...	863.0	[0..1]	[795..1]

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Predicted Domain #1

Region A:
Residues: [1-795]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKFSELWLRE WVNPAIDSDA LANQITMAGL EVDGVEPVAG SFHGVVVGEV VECAQHPNAD  60
   61 KLRVTKVNVG GDRLLDIVCG APNCRQGLRV AVATIGAVLP GDFKIKAAKL RGEPSEGMLC 120
  121 SFSELGISDD HSGIIELPAD APIGTDIREY LKLDDNTIEI SVTPNRADCL GIIGVARDVA 180
  181 VLNQLPLVQP EIVPVGATID DTLPITVEAP EACPRYLGRV VKGINVKAPT PLWMKEKLRR 240
  241 CGIRSIDAVV DVTNYVLLEL GQPMHAFDKD RIEGGIVVRM AKEGETLVLL DGTEAKLNAD 300
  301 TLVIADHNKA LAMGGIFGGE HSGVNDETQN VLLECAFFSP LSITGRARRH GLHTDASHRY 360
  361 ERGVDPALQH KAMERATRLL IDICGGEAGP VIDITNEATL PKRATITLRR SKLDRLIGHH 420
  421 IADEQVTDIL RRLGCEVTEG KDEWQAVAPS WRFDMEIEED LVEEVARVYG YNNIPDEPVQ 480
  481 ASLIMGTHRE ADLSLKRVKT LLNDKGYQEV ITYSFVDPKV QQMIHPGVEA LLLPSPISVE 540
  541 MSAMRLSLWT GLLATVVYNQ NRQQNRVRIF ESGLRFVPDT QAPLGIRQDL MLAGVICGNR 600
  601 YEEHWNLAKE TVDFYDLKGD LESVLDLTGK LNEVEFRAEA NPALHPGQSA AIYLKGERIG 660
  661 FVGVVHPELE RKLDLNGRTL VFELEWNKLA DRVVPQAREI SRFPANRRDI AVVVAENVPA 720
  721 ADILSECKKV GVNQVVGVNL FDVYRGKGVA EGYKSLAISL ILQDTSRTLE EEEIAATVAK 780
  781 CVEALKERFQ ASLRD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	180.0
Match:	1b70B
Description:	Domains B1 and B5 of PheRS-beta, PheT; Domain B2 of PheRS-beta, PheT; Phenylalanyl-tRNA synthetase; Phenyl-tRNA synthetase (PheRS) beta subunit, PheT, central domain; B3/B4 domain of PheRS, PheT
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
phenylalanine-tRNA ligase activity	13.8919118344182	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	12.5698315343202	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	12.5698315343202	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	12.5592545638101	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
structural constituent of ribosome	2.90150581291897	bayes_pls_golite062009
glycine-tRNA ligase activity	2.61548498770105	bayes_pls_golite062009
structural molecule activity	2.54582212334303	bayes_pls_golite062009
threonine-tRNA ligase activity	2.18642354927	bayes_pls_golite062009
serine-tRNA ligase activity	2.07594942154162	bayes_pls_golite062009
catalytic activity	1.99372273395202	bayes_pls_golite062009
alanine-tRNA ligase activity	1.82594054955281	bayes_pls_golite062009
lysine-tRNA ligase activity	1.72324031407565	bayes_pls_golite062009
histidine-tRNA ligase activity	1.72215103383322	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
ribonuclease activity	0.506819168662173	bayes_pls_golite062009
binding	0.311307565529325	bayes_pls_golite062009
nuclease activity	0.29926900436997	bayes_pls_golite062009
single-stranded DNA binding	0.19668406318255	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: