YRC Public Data Repository - Protein Structure Prediction

Protein:	SYFB_YERPE
Organism:	Yersinia pestis
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_YERPE.

Description	E-value	Query Range	Subject Range
gi\|45436868, gi\|... - gi\|45442005\|ref\|NP_993544.1\| phenylalanyl-tRNA synthetase subunit beta [Yersinia pestis biovar Micro...	0.0	[1..795]	[1..795]
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...	0.0	[1..795]	[1..795]
gi\|153950288, gi... - gi\|77629408\|ref\|ZP_00791994.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia pseudotu...	0.0	[1..795]	[1..795]
gi\|77975256, gi\|... - gi\|77975256\|ref\|ZP_00830792.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia frederik...	0.0	[1..795]	[1..795]
gi\|238791697, gi... - gi\|77980149\|ref\|ZP_00835564.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia intermed...	0.0	[1..795]	[1..795]
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...	0.0	[1..795]	[1..795]
gi\|238718807, gi... - gi\|77962047\|ref\|ZP_00825873.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia mollaret...	0.0	[1..795]	[1..795]
gi\|238783380, gi... - gi\|77959157\|ref\|ZP_00823180.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Yersinia bercovie...	0.0	[1..795]	[1..795]
gi\|227117687, gi... - gi\|75826620\|ref\|ZP_00756055.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Vibrio cholerae O...	0.0	[1..795]	[1..795]
gi\|90439217, gi\|... - gi\|90579643\|ref\|ZP_01235452.1\| phenylalanyl-tRNA synthetase beta subunit [Vibrio angustum S14], gi\|9...	0.0	[1..795]	[1..795]

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Predicted Domain #1

Region A:
Residues: [1-795]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKFSELWLRE WVNPAISSDD LAHQITMAGL EVDGVDAVAG EFNGVVVGHV VECGQHPNAD  60
   61 KLRVTKIDVG GDRLLDIVCG APNCRQGLKV AVATVGAVLP GDFKIKAAKL RGESSEGMLC 120
  121 SFSELAISDD HDGIIELPAD APIGVDVREY LHLDDKTIEI SVTPNRADCL GIIGVARDVA 180
  181 VVNQLPLTEP DMAEVVASIN DTLPIRVDAP QACPRYLGRV VKGINVKAAT PLWMREKLRR 240
  241 CGIRSIDPVV DVTNFVLLEL GQPMHAFDLD RISGGVIVRL ATDGEELTLL DGTKAKLNAD 300
  301 TLVIADHQKP LAMAGIFGGE HSGVNEETRN VLLESAFFNP LSITGRARRH GLHTDASHRY 360
  361 ERGVDPALQH KAIERATRLL IDICGGEAGP VVDVTTASEL PKQATITLRR EKLDRLIGHH 420
  421 IPSEQVSDIL RRLGCKVTEC GSDWQAVAPS WRFDMAIEED LVEEVARIYG YNNIPDVPVR 480
  481 ADLVMTKHRE ASLSLKRVKT ALVDRGYQEA ITYSFVDPKV QALLHPQQEA LILPNPISVD 540
  541 MSAMRLSLLT GLLSAVVYNQ NRQQSRLRLF ESGLRFVPDN TADLGIRQDV MLAGVIAGHR 600
  601 YDEHWDLARQ PIDFYDLKGD LEAILELTGK LSDVQFRAEA HSALHPGQSA AIYLAGEHIG 660
  661 FIGVVHPELE RKLDLNGRTV VFEVQWNKLA DRAVPQAREI SRFPANRRDI AVVVAENVPA 720
  721 EDILAECKKV GANQVVGVNL FDVYSGKGVA EGYKSLAISL VLQDTARTLE EEEIAATVAK 780
  781 CVEALKQRFQ ASLRD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
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	8.21379103874748	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	8.21379103874748	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	8.20292704456024	bayes_pls_golite062009
structural constituent of ribosome	2.90150581291897	bayes_pls_golite062009
glycine-tRNA ligase activity	2.61548498770105	bayes_pls_golite062009
ligase activity	2.56279938346489	bayes_pls_golite062009
structural molecule activity	2.54582212334303	bayes_pls_golite062009
nucleic acid binding	2.40504745115911	bayes_pls_golite062009
threonine-tRNA ligase activity	2.18642354927	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
histidine-tRNA ligase activity	1.72215103383322	bayes_pls_golite062009
binding	1.60192408330567	bayes_pls_golite062009
DNA binding	1.60160949474354	bayes_pls_golite062009
translation regulator activity	1.46320772716954	bayes_pls_golite062009
translation factor activity, nucleic acid binding	1.40718318783582	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.921774798819338	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
ribonuclease activity	0.506819168662173	bayes_pls_golite062009
structure-specific DNA binding	0.440010017405756	bayes_pls_golite062009
nuclease activity	0.29926900436997	bayes_pls_golite062009
single-stranded DNA binding	0.19668406318255	bayes_pls_golite062009
RNA binding	0.17671444859699	bayes_pls_golite062009
protein binding	0.175576548546361	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: