YRC Public Data Repository - Protein Structure Prediction

Protein:	HER1
Organism:	Saccharomyces cerevisiae
Length:	1246 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 HER1.

Description	E-value	Query Range	Subject Range
GIP3 - Glc7-interacting protein whose overexpression relocalizes Glc7p from the nucleus and prevents chromo... GIP3_YEAST - GLC7-interacting protein 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=GIP3 PE=1 SV=...	964.0	[0..5]	[1242..2]
gi\|49528774 - gi\|49528774\|emb\|CAG62436.1\| unnamed protein product [Candida glabrata] gi\|50294097, gi\|... - gi\|50294097\|ref\|XP_449460.1\| hypothetical protein CAGL0M02607g [Candida glabrata CBS138], gi\|4952877...	625.0	[0..185]	[1245..135]
gi\|49642517\|emb\|... - unnamed protein product [Kluyveromyces lactis NRRL Y-1140] gi\|49642517, gi\|... - gi\|50306815\|ref\|XP_453383.1\| unnamed protein product [Kluyveromyces lactis], gi\|49642517\|emb\|CAH0047...	587.0	[0..302]	[1245..267]
gi\|44981554 - gi\|44981554\|gb\|AAS51339.1\| ACR113Wp [Ashbya gossypii ATCC 10895] gi\|44981554, gi\|... - gi\|45185799\|ref\|NP_983515.1\| ACR113Wp [Ashbya gossypii ATCC 10895], gi\|44981554\|gb\|AAS51339.1\| ACR11...	583.0	[0..270]	[1245..176]
gi\|49658250, gi\|... - gi\|50427935\|ref\|XP_462580.1\| hypothetical protein DEHA0G25278g [Debaryomyces hansenii CBS767], gi\|49...	379.0	[0..476]	[1245..503]
gi\|42820692, gi\|... - gi\|42820692\|emb\|CAF32005.1\| hypothetical protein [Aspergillus fumigatus], gi\|19577351\|emb\|CAD28432.1... gi\|70995810, gi\|... - gi\|70995810\|ref\|XP_752660.1\| Leucine Rich Repeat domain protein [Aspergillus fumigatus Af293], gi\|66...	372.0	[0..146]	[889..18]
gi\|77022710, gi\|... - gi\|77022710\|ref\|XP_888799.1\| hypothetical protein CaO19_6544 [Candida albicans SC5314], gi\|68470215\|... gi\|76573612 - gi\|76573612\|dbj\|BAE44696.1\| hypothetical protein [Candida albicans]	369.0	[0..470]	[1245..583]

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Predicted Domain #1

Region A:
Residues: [1-223]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSKLKYTDI DVPLDWLYKG KRRNRTKSAA STRTSEATTT SVKKTATLPS TAAVPTKTIA  60
   61 SPQRPLSGQN VNNELSNSKP AVSAEKVSQQ GQVPTRRTRS HSVSYGLLQK KNNNDDTTDS 120
  121 PKISRIRTAQ DQPVKETKSS TLAEPIVSKK GRSRSSSIST SLNERSKKSL FGSLFGRRPS 180
  181 TTPSHVVERP LSSQNDHKKS TELPPIDTRQ SKISTPTSTP TTA

[Run NCBI BLAST on this sequence.]

Detection Method:	ab initio
Confidence:	11.93
Match:
Description:	No description for 1deqA was found.

Predicted Domain #2

Region A:
Residues: [224-292]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSKPSSSGGN RHSDGSLTSK LLSIPHNILE TSSTNFNAHH HIQSHHSSGR EQDSPHSESS  60
   61 DLPPILEKE

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.323	a.5.3	N-terminal domain of phosphatidylinositol transfer protein sec14p
View	Download	0.272	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.221	a.35.1	lambda repressor-like DNA-binding domains
View	Download	0.204	a.159.4	Description not found.

Predicted Domain #3

Region A:
Residues: [293-513]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TTQKQLQKVS KVNLKRVTIA VQEFNSDPPQ QLPSRKPKRG NVLIPEDMIS APPLISLGIT  60
   61 NSSDQSSFQS NISPSYSKDS KEYKLALENF KKAAKEAEKH QKDAYYVAER MAQEVANYKA 120
  121 RQLKTSPLTG ATNSAADSAT DQESSSLDAR ASKLHIDKPI NVGAHPFETH QDDNIKYSSH 180
  181 LEQTLDVAYT RCCHLREILP IPSTLRQVKG KTAPLQTLKF L

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [514-597]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NPKPTLVDIL SFCDFIAITP IHNIIFDNVS LTHDMFKIVI CSLVTSPVVE KLGLRNVVIN  60
   61 EQSWKLLCKF LLQNKTLIKL DISQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.09691
Match:	1dfjI
Description:	Ribonuclease inhibitor
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [598-639]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TKARTDLNDS NYRDQMDWEL FCEVLRNREG RPLEELLLNG LR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.09691
Match:	1dfjI
Description:	Ribonuclease inhibitor
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [640-869]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FDKMSFSHFK NILLTFAQMN PKNPIRLGMA NVEFSTECFD FLFNWMSEYN VQGVDLAYNN  60
   61 LESLAKRMIK KLARLPYKHL EYFTLNSTNI TSVDDMSYIL KYLSRLPSIK FLDLSNLPQL 120
  121 FPGILTSGYK YFPQFPQLKR IHFDFDDLSI KETTMLVSIL AKCETLSHVS LIGQSPMPDA 180
  181 SKISDSTDEP DKSKDEKKEQ IVFMRNTLWA SLYAFVRDSH NLVSLDVDYD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.09691
Match:	1dfjI
Description:	Ribonuclease inhibitor
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [870-966]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QVPDEIQSRI ALCLMHNMKR IMDSSFKLDE LTVQDDLIFD GSLITETAEE VLKRLNDKSL  60
   61 LQNDVGKKYL LKKYFEKMEK VHHNVQNTID SMFEKRK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.09691
Match:	1g9uA
Description:	Leucine rich effector protein YopM
Matching Structure (courtesy of the PDB):

Predicted Domain #8

Region A:
Residues: [967-1246]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SGELPLQEKE NLLRLLLLEK NLSNILDIFA SMPNIADVVP FSKADNSFPN IGDSTVSANY  60
   61 NDGIRPSLKH LDSDRLINDV SIPENDSSIR PHLMATDSGR IIDVTTGKAL LFKSSSNTSL 120
  121 AGKRQEEEEG ELHKWGVFVQ HQSSRHNSGL PSSANSSRIS GSLTPDSSVA GGKKGESSRT 180
  181 SGTRPKILPK IPTGAELRDA IIKAKGIDSV DDLIKNVTSE KVGLESLYGD ELNSRSPSND 240
  241 SLQESQQKAP LQRPLVEDET VTKKYDKLLN DLSNVRHSKT

[Run NCBI BLAST on this sequence.]

Detection Method:	ab initio
Confidence:	7.86
Match:
Description:	No description for 1l2qA was found.

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