YRC Public Data Repository - Protein Structure Prediction

Protein:	HER2
Organism:	Saccharomyces cerevisiae
Length:	464 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 HER2.

Description	E-value	Query Range	Subject Range
GATA1_CLOAB - Glutamyl-tRNA(Gln) amidotransferase subunit A 1 OS=Clostridium acetobutylicum (strain ATCC 824 / DSM... GATA1_CLOAB, GAA... - Glutamyl-tRNA(Gln) amidotransferase subunit A 1 OS=Clostridium acetobutylicum GN=gatA1 PE=3 SV=1, (Q...	0.0	[1..461]	[20..470]
GATA_GEOSE - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Geobacillus stearothermophilus GN=gatA PE=3 SV=1	0.0	[1..462]	[20..471]
GATA_BACHD - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Bacillus halodurans GN=gatA PE=3 SV=1 GATA_BACHD - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 1819...	0.0	[1..462]	[20..471]
GATA_BACSU - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Bacillus subtilis GN=gatA PE=3 SV=3 gi\|221322031 - gi\|221322031\|ref\|ZP_03603325.1\| aspartyl/glutamyl-tRNA amidotransferase subunit A [Bacillus subtilis... gi\|221317752 - gi\|221317752\|ref\|ZP_03599046.1\| aspartyl/glutamyl-tRNA amidotransferase subunit A [Bacillus subtilis... gi\|221312828 - gi\|221312828\|ref\|ZP_03594633.1\| aspartyl/glutamyl-tRNA amidotransferase subunit A [Bacillus subtilis... GATA_BACSU - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Bacillus subtilis (strain 168) GN=gatA PE=3 SV=3	0.0	[1..462]	[20..471]
GATA_AQUAE - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Aquifex aeolicus GN=gatA PE=1 SV=1 GATA_AQUAE - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Aquifex aeolicus (strain VF5) GN=gatA PE=1 SV=1	0.0	[1..461]	[19..463]
gi\|11267587 - gi\|11267587\|pir\|\|C81849 Glu-tRNA(Gln) amidotransferase subunit A NMA1568 [imported] - Neisseria meni... GATA_NEIMA - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Neisseria meningitidis serogroup A / serotype 4A (s... GATA_NEIMA - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Neisseria meningitidis serogroup A GN=gatA PE=3 SV=...	0.0	[1..463]	[18..469]
GATA_NEIMB - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Neisseria meningitidis serogroup B GN=gatA PE=3 SV=... gi\|11267591 - pir\|\|E81091 Glu-tRNA(Gln) amidotransferase, chain A NMB1356 [imported] - Neisseria meningitidis (str... GATA_NEIMB - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Neisseria meningitidis serogroup B (strain MC58) GN...	0.0	[1..463]	[18..469]
GATA_STAAN - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Staphylococcus aureus (strain N315) GN=gatA PE=1 SV... GATA_STAAM - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) G... GATA_STAA1 - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Staphylococcus aureus (strain Mu3 / ATCC 700698) GN... gi\|255006687 - gi\|255006687\|ref\|ZP_05145288.2\| aspartyl/glutamyl-tRNA amidotransferase subunit A [Staphylococcus au... gi\|25290875, gi\|... - pir\|\|C89978 glutamyl-tRNAGln amidotransferase subunit A [imported] - Staphylococcus aureus (strain N...	0.0	[1..462]	[20..471]
GATA_LISIN - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=... GATA_LISIN - Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Listeria innocua GN=gatA PE=3 SV=1	0.0	[1..462]	[20..469]

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Predicted Domain #1

Region A:
Residues: [1-464]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPLKRSLKES IERLSSFQSK YNIFTSINPS PYSITNKKGT KETLTGCVAS IKDNIVTKDF  60
   61 PTTCASHILE NFKSPFDATV VKLLKQAGVH ILGKTNLDEF GMGSGGVHSI RGPVINPLYP 120
  121 HEDKKIMGGS SSGAAASVAC DLVDFALGTD TGGSVRLPAC YGSVLGFKPS YGRLSRFGVI 180
  181 AYSQSLDTVG ILSKKINVLR KVFHTLDKYD MKDPTSLSVE LRELIEGNKK VRRPLKVGIV 240
  241 KEFSHESMPI GFHRLYLSLL EKLINLGLEI YPVSIPSVKN CLPIYYTLSP AEAASNLSRY 300
  301 DGIRYGYRDS ELDIKDGILF APTRSKFGTE VKNRIILGNY NLCSDAFKNN FIKAEKLRVN 360
  361 LIDEFDGIFR FPNVLTNSKG NPDGLDLLIV PTSSKLPGSI RDFEEEEAKS PANSYINDVF 420
  421 TVPMSLAGLP SLSMPLKEKT PIGLQVVGQY GDDSTVLDFV ESIS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	210.274545
Match:	1gr8A_
Description:	No description for 1gr8A_ was found.

Predicted functions:

Term	Confidence	Notes
glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity	7.42914157198604	bayes_pls_golite062009
ligase activity	3.16753436373904	bayes_pls_golite062009
binding	1.29965583137169	bayes_pls_golite062009
catalytic activity	0.906509857495572	bayes_pls_golite062009
protein binding	0.583347864945253	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	0.301483171038292	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: