YRC Public Data Repository - Protein Structure Prediction

Protein:	VAS1
Organism:	Saccharomyces cerevisiae
Length:	1104 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 VAS1.

Description	E-value	Query Range	Subject Range
gi\|173164 - gi\|173164\|gb\|AAA35207.1\| valyl-tRNA synthetase	0.0	[1..1104]	[1..1104]
gi\|4590330, gi\|4... - gi\|4590330\|gb\|AAD26532.1\|AF087680_1 valyl-tRNA synthetase [Mus musculus], gi\|4590328\|gb\|AAD26531.1\|A...	0.0	[54..1102]	[211..1262]
gi\|15215421, gi\|... - gi\|168985920\|emb\|CAQ07253.1\| valyl-tRNA synthetase [Homo sapiens], gi\|168985661\|emb\|CAQ10126.1\| valy...	0.0	[54..1102]	[211..1263]
SYVM1_ARATH - Valine--tRNA ligase, mitochondrial 1 OS=Arabidopsis thaliana GN=TWN2 PE=2 SV=2	0.0	[33..1101]	[27..1100]
SYVC_TAKRU - Valine--tRNA ligase OS=Takifugu rubripes GN=vars PE=3 SV=1	0.0	[46..1102]	[145..1216]

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Predicted Domain #1

Region A:
Residues: [1-121]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKWLNTLSK TFTFRLLNCH YRRSLPLCQN FSLKKSLTHN QVRFFKMSDL DNLPPVDPKT  60
   61 GEVIINPLKE DGSPKTPKEI EKEKKKAEKL LKFAAKQAKK NAAATTGASQ KKPKKKKEVE 120
  121 P

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [122-169]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IPEFIDKTVP GEKKILVSLD DPALKAYNPA NVESSWYDWW IKTGVFEP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [196-218]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LHIGHALTIA IQDSLIRYNR MKG

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [693-945]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HSLVRDAQGR KMSKSLGNVI DPLDVITGIK LDDLHAKLLQ GNLDPREVEK AKIGQKESYP  60
   61 NGIPQCGTDA MRFALCAYTT GGRDINLDIL RVEGYRKFCN KIYQATKFAL MRLGDDYQPP 120
  121 ATEGLSGNES LVEKWILHKL TETSKIVNEA LDKRDFLTST SSIYEFWYLI CDVYIENSKY 180
  181 LIQEGSAIEK KSAKDTLYIL LDNALKLIHP FMPFISEEMW QRLPKRSTEK AASIVKASYP 240
  241 VYVSEYDDVK SAN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2610.0
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
RNA binding	0.0208852714448815	bayes_pls_golite062009
mRNA binding	2.82524485163416E-5	bayes_pls_golite062009

Predicted Domain #3

Region A: Residues: [170-195]	1 11 21 31 41 51 \| \| \| \| \| \| 1 EFTADGKVKP EGVFCIPAPP PNVTGA [Run NCBI BLAST on this sequence.]
Region B: Residues: [219-357]	1 11 21 31 41 51 \| \| \| \| \| \| 1 KTVLFLPGFD HAGIATQSVV EKQIWAKDRK TRHDYGREAF VGKVWEWKEE YHSRIKNQIQ 60 61 KLGASYDWSR EAFTLSPELT KSVEEAFVRL HDEGVIYRAS RLVNWSVKLN TAISNLEVEN 120 121 KDVKSRTLLS VPGYDEKVE [Run NCBI BLAST on this sequence.]
Region C: Residues: [505-692]	1 11 21 31 41 51 \| \| \| \| \| \| 1 TIPTCSRSGD IIEPLLKPQW WVSQSEMAKD AIKVVRDGQI TITPKSSEAE YFHWLGNIQD 60 61 WCISRQLWWG HRCPVYFINI EGEEHDRIDG DYWVAGRSME EAEKKAAAKY PNSKFTLEQD 120 121 EDVLDTWFSS GLWPFSTLGW PEKTKDMETF YPFSMLETGW DILFFWVTRM ILLGLKLTGS 180 181 VPFKEVFC [Run NCBI BLAST on this sequence.]
Region D: Residues: [946-1104]	1 11 21 31 41 51 \| \| \| \| \| \| 1 AYDLVLNITK EARSLLSEYN ILKNGKVFVE SNHEEYFKTA EDQKDSIVSL IKAIDEVTVV 60 61 RDASEIPEGC VLQSVNPEVN VHLLVKGHVD IDAEIAKVQK KLEKAKKSKN GIEQTINSKD 120 121 YETKANTQAK EANKSKLDNT VAEIEGLEAT IENLKRLKL [Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2610.0
Match:	1gaxA_
Description:	Valyl-tRNA synthetase (ValRS) C-terminal domain; Valyl-tRNA synthetase (ValRS)
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [358-504]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FGVLTSFAYP VIGSDEKLII ATTRPETIFG DTAVAVHPDD DRYKHLHGKF IQHPFLPRKI  60
   61 PIITDKEAVD MEFGTGAVKI TPAHDQNDYN TGKRHNLEFI NILTDDGLLN EECGPEWQGM 120
  121 KRFDARKKVI EQLKEKNLYV GQEDNEM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2610.0
Match:	1gaxA_
Description:	Valyl-tRNA synthetase (ValRS) C-terminal domain; Valyl-tRNA synthetase (ValRS)
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: