YRC Public Data Repository - Protein Structure Prediction

Protein:	GCN2
Organism:	Saccharomyces cerevisiae
Length:	1659 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 GCN2.

Description	E-value	Query Range	Subject Range
gi\|10764165 - gi\|10764165\|gb\|AAG22591.1\| GCN2gamma [Mus musculus]	0.0	[77..1648]	[8..1562]
gi\|3355628, gi\|3... - gi\|3355628\|emb\|CAA62973.1\| CPC3 protein [Neurospora crassa], gi\|32412400\|ref\|XP_326680.1\| hypothetic... gi\|85103595 - gi\|85103595\|ref\|XP_961553.1\| hypothetical protein NCU01187 [Neurospora crassa OR74A]	0.0	[11..1657]	[44..1644]
gi\|171578, gi\|121064 - gi\|171578\|gb\|AAA34636.1\| GCN2 [Saccharomyces cerevisiae], gi\|121064\|sp\|P15442\|GCN2_YEAST Serine/thre...	0.0	[70..1659]	[1..1590]
gi\|7243057 - gi\|7243057\|dbj\|BAA92576.1\| KIAA1338 protein [Homo sapiens]	0.0	[161..1648]	[22..1487]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[9..1588]	[8..1517]
Gcn2-PA, FBpp0306618 - The gene Gcn2 is referred to in FlyBase by the symbol Dmel\Gcn2 (CG1609, FBgn0019990). It is a prote...	0.0	[9..1588]	[8..1517]

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Predicted Domain #1

Region A:
Residues: [1-199]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLSHLTLDQ YYEIQCNELE AIRSIYMDDF TDLTKRKSSW DKQPQIIFEI TLRSVDKEPV  60
   61 ESSITLHFAM TPMYPYTAPE IEFKNVQNVM DSQLQMLKSE FKKIHNTSRG QEIIFEITSF 120
  121 TQEKLDEFQN VVNTQSLEDD RLQRIKETKE QLEKEEREKQ QETIKKRSDE QRRIDEIVQR 180
  181 ELEKRQDDDD DLLFNRTTQ

[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 functions:

Term	Confidence	Notes
ligase activity	5.77046276233401	bayes_pls_golite062009
small conjugating protein ligase activity	3.65045022869763	bayes_pls_golite062009
ubiquitin-protein ligase activity	3.38582942748827	bayes_pls_golite062009
eukaryotic translation initiation factor 2alpha kinase activity	3.23512529981344	bayes_pls_golite062009
acid-amino acid ligase activity	2.62286563200644	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	2.4573066461497	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	2.4573066461497	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	2.44492491338365	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	1.69002970237151	bayes_pls_golite062009
kinase activity	1.63748693386705	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.47781099411385	bayes_pls_golite062009
binding	1.32417336730245	bayes_pls_golite062009
protein kinase activity	1.24946862508965	bayes_pls_golite062009
transferase activity	1.12000675735902	bayes_pls_golite062009
nucleic acid binding	1.07247161465191	bayes_pls_golite062009
transcription regulator activity	1.07160795075065	bayes_pls_golite062009
protein serine/threonine kinase activity	0.972449791105909	bayes_pls_golite062009
DNA binding	0.933974549145269	bayes_pls_golite062009
catalytic activity	0.891402822028799	bayes_pls_golite062009
protein binding	0.726328463755484	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	0.509761707991986	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [200-263]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDLQPPSEWV ASGEAIVFSK TIKAKLPNNS MFKFKAVVNP KPIKLTSDIF SFSKQFLVKP  60
   61 YIPP

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.530	0.924	regulation of translational initiation	a.144.1	PABC (PABP) domain

Predicted Domain #3

Region A:
Residues: [264-579]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ESPLADFLMS SEMMENFYYL LSEIELDNSY FNTSNGKKEI ANLEKELETV LKAKHDNVNR  60
   61 LFGYTVERMG RNNATFVWKI RLLTEYCNYY PLGDLIQSVG FVNLATARIW MIRLLEGLEA 120
  121 IHKLGIVHKC INLETVILVK DADFGSTIPK LVHSTYGYTV LNMLSRYPNK NGSSVELSPS 180
  181 TWIAPELLKF NNAKPQRLTD IWQLGVLFIQ IISGSDIVMN FETPQEFLDS TSMDETLYDL 240
  241 LSKMLNNDPK KRLGTLELLP MKFLRTNIDS TINRFNLVSE SVNSNSLELT PGDTITVRGN 300
  301 GGRTLSQSSI RRRSFN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	160.626727
Match:	1pme__
Description:	MAP kinase Erk2
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
phosphotransferase activity, alcohol group as acceptor	5.49988294224815	bayes_pls_golite062009
kinase activity	5.3287080791198	bayes_pls_golite062009
protein kinase activity	5.17195961442593	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	4.96052051118534	bayes_pls_golite062009
protein serine/threonine kinase activity	4.46381887831481	bayes_pls_golite062009
transferase activity	3.97138602499442	bayes_pls_golite062009
structural molecule activity	3.82327979736517	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	2.33015238923914	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	2.33015238923914	bayes_pls_golite062009
binding	2.31930216202447	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	2.31770167474216	bayes_pls_golite062009
ligase activity	2.15844649250746	bayes_pls_golite062009
ATP binding	1.97600611746091	bayes_pls_golite062009
adenyl ribonucleotide binding	1.93596671856664	bayes_pls_golite062009
adenyl nucleotide binding	1.90928021591891	bayes_pls_golite062009
purine ribonucleotide binding	1.65732943334212	bayes_pls_golite062009
ribonucleotide binding	1.65726906484847	bayes_pls_golite062009
purine nucleotide binding	1.63763394711025	bayes_pls_golite062009
nucleotide binding	1.63195828048121	bayes_pls_golite062009
protein tyrosine kinase activity	1.3898059094397	bayes_pls_golite062009
receptor signaling protein serine/threonine kinase activity	1.38496328649031	bayes_pls_golite062009
receptor signaling protein activity	1.27291233344322	bayes_pls_golite062009
protein binding	1.22565748038754	bayes_pls_golite062009
catalytic activity	1.21655087018101	bayes_pls_golite062009
eukaryotic translation initiation factor 2alpha kinase activity	1.09810837428564	bayes_pls_golite062009
protein serine/threonine/tyrosine kinase activity	0.48345772948903	bayes_pls_golite062009
transcription regulator activity	0.425540150205164	bayes_pls_golite062009
cyclin-dependent protein kinase activity	0.39973598464632	bayes_pls_golite062009
nucleic acid binding	0.398242700677703	bayes_pls_golite062009
magnesium ion binding	0.393328812780268	bayes_pls_golite062009
MAP kinase kinase kinase activity	0.37115026509016	bayes_pls_golite062009
MAP kinase kinase activity	0.35402045013148	bayes_pls_golite062009
DNA binding	0.331341423430082	bayes_pls_golite062009
signal transducer activity	0.270054246024761	bayes_pls_golite062009
molecular transducer activity	0.270054246024761	bayes_pls_golite062009
RNA binding	0.245748631571068	bayes_pls_golite062009
transcription factor activity	0.151610605304256	bayes_pls_golite062009
transmembrane receptor protein kinase activity	0.0556163711947139	bayes_pls_golite062009
transmembrane receptor activity	0.00652065412910241	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [580-702]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VGSRFSSINP ATRSRYASDF EEIAVLGQGA FGQVVKARNA LDSRYYAIKK IRHTEEKLST  60
   61 ILSEVMLLAS LNHQYVVRYY AAWLEEDSMD ENVFESTDEE SDLSESSSDF EENDLLDQSS 120
  121 IFK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	57.201249
Match:	1lwpA_
Description:	No description for 1lwpA_ was found.

Predicted Domain #5

Region A:
Residues: [703-800]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NRTNHDLDNS NWDFISGSGY PDIVFENSSR DDENEDLDHD TSSTSSSESQ DDTDKESKSI  60
   61 QNVPRRRNFV KPMTAVKKKS TLFIQMEYCE NRTLYDLI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	57.201249
Match:	1lwpA_
Description:	No description for 1lwpA_ was found.

Predicted Domain #6

Region A:
Residues: [801-938]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HSENLNQQRD EYWRLFRQIL EALSYIHSQG IIHRDLKPMN IFIDESRNVK IGDFGLAKNV  60
   61 HRSLDILKLD SQNLPGSSDN LTSAIGTAMY VATEVLDGTG HYNEKIDMYS LGIIFFEMIY 120
  121 PFSTGMERVN ILKKLRSV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	57.201249
Match:	1lwpA_
Description:	No description for 1lwpA_ was found.

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	7.89468709683036	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.89468709683036	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.88410036819636	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
histidine-tRNA ligase activity	5.91343220471745	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	3.22631630581238	bayes_pls_golite062009
glycine-tRNA ligase activity	2.29229136935761	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
transferase activity, transferring phosphorus-containing groups	1.43493514551266	bayes_pls_golite062009
binding	1.11470390774037	bayes_pls_golite062009
transferase activity	1.00944766864901	bayes_pls_golite062009
transcription regulator activity	0.936096346913383	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
nucleic acid binding	0.817940471445751	bayes_pls_golite062009
ATP binding	0.78849239804069	bayes_pls_golite062009
DNA binding	0.755075958424431	bayes_pls_golite062009
adenyl ribonucleotide binding	0.751370849162632	bayes_pls_golite062009
adenyl nucleotide binding	0.727917585848449	bayes_pls_golite062009
RNA binding	0.576453255038334	bayes_pls_golite062009
purine ribonucleotide binding	0.482944943143156	bayes_pls_golite062009
ribonucleotide binding	0.48293725802639	bayes_pls_golite062009
purine nucleotide binding	0.467088940808932	bayes_pls_golite062009
nucleotide binding	0.457991109108443	bayes_pls_golite062009
transcription factor activity	0.151651763713257	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.00572514744734753	bayes_pls_golite062009

Predicted Domain #7

Region A:
Residues: [939-1029]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SIEFPPDFDD NKMKVEKKII RLLIDHDPNK RPGARTLLNS GWLPVKHQDE VIKEALKSLS  60
   61 NPSSPWQQQV RESLFNQSYS LTNDILFDNS V

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	271.0
Match:	1a06__
Description:	Calmodulin-dependent protein kinase
Matching Structure (courtesy of the PDB):

Predicted Domain #8

Region A:
Residues: [1030-1062]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PTSTPFANIL RSQMTEEVVK IFRKHGGIEN NAP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [1093-1117]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DLTYPMARYL SKNPSLISKQ YRMQH

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [1134-1371]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FGEIDFDIIS KSSSESGFYD AESLKIIDEI LTVFPVFEKT NTFFILNHAD ILESVFNFTN  60
   61 IDKAQRPLVS RMLSQVGFAR SFKEVKNELK AQLNISSTAL NDLELFDFRL DFEAAKKRLY 120
  121 KLMIDSPHLK KIEDSLSHIS KVLSYLKPLE VARNVVISPL SNYNSAFYKG GIMFHAVYDD 180
  181 GSSRNMIAAG GRYDTLISFF ARPSGKKSSN TRKAVGFNLA WETIFGIAQN YFKLASGN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.0
Match:	1httA_
Description:	Histidyl-tRNA synthetase (HisRS), C-terminal domain; Histidyl-tRNA synthetase (HisRS)
Matching Structure (courtesy of the PDB):

Predicted Domain #9

Region A:
Residues: [1063-1092]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PRIFPKAPIY GTQNVYEVLD KGGTVLQLQY

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [1118-1133]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VYRPPDHSRS SLEPRK

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [1372-1517]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RIKKRNRFLK DTAVDWKPSR CDVLISSFSN SLLDTIGVTI LNTLWKQNIK ADMLRDCSSV  60
   61 DDVVTGAQQD GIDWILLIKQ QAYPLTNHKR KYKPLKIKKL STNVDIDLDL DEFLTLYQQE 120
  121 TGNKSLINDS LTLGDKADEF KRWDEN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.0
Match:	1httA_
Description:	Histidyl-tRNA synthetase (HisRS), C-terminal domain; Histidyl-tRNA synthetase (HisRS)
Matching Structure (courtesy of the PDB):

Predicted Domain #10

Region A:
Residues: [1518-1659]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSAGSSQEGD IDDVVAGSTN NQKVIYVPNM ATRSKKANKR EKWVYEDAAR NSSNMILHNL  60
   61 SNAPIITVDA LRDETLEIIS ITSLAQKEEW LRKVFGSGNN STPRSFATSI YNNLSKEAHK 120
  121 GNRWAILYCH KTGKSSVIDL QR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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:

Predicted functions:

Predicted functions: