YRC Public Data Repository - Protein Structure Prediction

Protein:	SYV_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	958 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 SYV_SHEON.

Description	E-value	Query Range	Subject Range
gi\|78508322, gi\|... - gi\|78692277\|ref\|ZP_00856830.1\| Valyl-tRNA synthetase, class Ia [Shewanella sp. MR-7], gi\|78508322\|gb...	982.0	[0..1]	[958..1]
gi\|82498307, gi\|... - gi\|82498307\|ref\|ZP_00883812.1\| Valyl-tRNA synthetase, class Ia [Shewanella sp. MR-4], gi\|82403711\|gb...	982.0	[0..1]	[958..1]
gi\|82721920, gi\|... - gi\|82740700\|ref\|ZP_00903436.1\| Valyl-tRNA synthetase, class Ia [Shewanella sp. W3-18-1], gi\|82721920... gi\|145565526, gi... - gi\|146293836\|ref\|YP_001184260.1\| valyl-tRNA synthetase [Shewanella putrefaciens CN-32], gi\|145565526...	976.0	[0..1]	[958..1]
gi\|68542385, gi\|... - gi\|68542385\|ref\|ZP_00582116.1\| Valyl-tRNA synthetase, class Ia [Shewanella baltica OS155], gi\|685198...	974.0	[0..1]	[958..1]
gi\|113951360, gi... - gi\|113951360\|ref\|ZP_01436930.1\| valyl-tRNA synthetase [Shewanella baltica OS195], gi\|113906217\|gb\|EA...	971.0	[0..1]	[958..1]
gi\|78367845, gi\|... - gi\|78367845\|ref\|ZP_00838106.1\| Valyl-tRNA synthetase, class Ia [Shewanella sp. PV-4], gi\|78360105\|gb...	963.0	[0..1]	[957..1]
gi\|68546756, gi\|... - gi\|68546756\|ref\|ZP_00586301.1\| Valyl-tRNA synthetase, class Ia [Shewanella amazonensis SB2B], gi\|685...	962.0	[0..1]	[958..1]
gi\|94415871, gi\|... - gi\|94415871\|ref\|ZP_01295706.1\| hypothetical protein PaerP_01002441 [Pseudomonas aeruginosa PA7], gi\|...	956.0	[0..1]	[956..1]
SYV_PSEF5 - Valine--tRNA ligase OS=Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477) GN=valS PE=3 SV=1	954.0	[0..1]	[956..1]
gi\|238714082, gi... - gi\|77957034\|ref\|ZP_00821102.1\| COG0525: Valyl-tRNA synthetase [Yersinia bercovieri ATCC 43970], gi\|2...	954.0	[0..1]	[956..15]

Back

Predicted Domain #1

Region A:
Residues: [1-958]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEKTYDPQSI EQTLYQNWEE KGYFKPHGDA SQGNYCIMIP PPNVTGSLHM GHAFQDTIMD  60
   61 TLIRYQRMKG KNTLWQVGTD HAGIATQMLV ERKLEAEEGK SRHDLGRDVF MEKVWEWKAQ 120
  121 SGGTITKQLR RMGASVDWDR ERFTMDEGLS KAVQEVFVRL YEDDLIYRGK RLVNWDPKLH 180
  181 TAISDLEVEN KEKQGHMWHL RYPLADGELT ADGKDYLEVA TTRPETMLGD SAVAVHPDDE 240
  241 RYQALIGKYI LLPIVNRRIP IVADDYVDMA FGTGCVKITP AHDFNDYEVG KRHKLPMFNV 300
  301 LTLDAAIRSS AEVVNTDGTI NTSLDGSLPE RYAGLDRFKA RDAIVAEFET LGLLEKIAPH 360
  361 GLKVPYGDRS GVVIEPMLTD QWYVAVAPMA KTAIEAVENG DIKFVPQQYE NMYFSWMRDI 420
  421 QDWCISRQLW WGHRIPAWYD TNGKVYVGRT EAEVRAKHDI DDAIALRQDE DVLDTWFSSA 480
  481 LWTFSTLGWP DNVEDLKTFH PTDVLVTGFD IIFFWVARMI MMTMHFIKDE DGKPQVPFKT 540
  541 VYVTGLIRDE AGNKMSKSKG NVLDPLDMID GIDLETLVEK RTGNMMQPQL AAKIEKSTRK 600
  601 EFENGIEAHG TDALRFTLAA MASTGRDINW DMKRLDGYRS FCNKLWNASR YVLMNTEGQD 660
  661 CGPNSPDYQG GEMELSLADR WIIDLFNQTV KTYDEHMASY RFDLAANTLY EFTWNQFCDW 720
  721 YLELTKPVLQ NGTEAQMRGT RHTLVNVLEA MQRLMHPMMP YITETIWQRV KPLTGVQGDT 780
  781 IMLAPFPAFD AAKVDATAMA DLEWVKQVIV AVRNIRAELN IAPSKPLNAL LRGVSAQDKA 840
  841 RIEANQAFFA TLARLESMTI LGEGETAPMS TTGLIGEMEL LIPMAGLVDV AAEMARIDKQ 900
  901 LEKLTQEIAR IEGKLSNEGF VAKAPPAVID KERAKMADLS RDIDKLTEQK AEFAKLEA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1gaxA
Description:	Valyl-tRNA synthetase (ValRS) C-terminal domain; Valyl-tRNA synthetase (ValRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	8.24066297904343	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	8.24066297904343	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	8.23006189348918	bayes_pls_golite062009
valine-tRNA ligase activity	7.13767629265822	bayes_pls_golite062009
leucine-tRNA ligase activity	7.03538514482698	bayes_pls_golite062009
ligase activity	6.98979325804867	bayes_pls_golite062009
isoleucine-tRNA ligase activity	6.38633897147986	bayes_pls_golite062009
methionine-tRNA ligase activity	2.56893064485672	bayes_pls_golite062009
catalytic activity	2.26766689929461	bayes_pls_golite062009
tyrosine-tRNA ligase activity	1.88984817882585	bayes_pls_golite062009
arginine-tRNA ligase activity	1.51931993626103	bayes_pls_golite062009
tryptophan-tRNA ligase activity	1.14187887833901	bayes_pls_golite062009
binding	0.987705174689351	bayes_pls_golite062009
cysteine-tRNA ligase activity	0.844943947059557	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.625793556381714	bayes_pls_golite062009
nucleic acid binding	0.514662028202085	bayes_pls_golite062009
nucleotidyltransferase activity	0.2293846471193	bayes_pls_golite062009
protein binding	0.143518788844143	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: