YRC Public Data Repository - Protein Structure Prediction

Protein:	SEC7
Organism:	Saccharomyces cerevisiae
Length:	2009 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 SEC7.

Description	E-value	Query Range	Subject Range
sec71 - Sec7 domain SEC7A_SCHPO - Protein transport protein sec71 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sec71 PE=1...	0.0	[113..2000]	[2..1808]
gi\|172570 - gi\|172570\|gb\|AAB04031.1\| Sec7p protein	0.0	[1..2009]	[1..2009]
BIG1_BOVIN - Brefeldin A-inhibited guanine nucleotide-exchange protein 1 OS=Bos taurus GN=ARFGEF1 PE=1 SV=1	0.0	[289..2005]	[207..1834]
ARFGEF2 - ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	0.0	[313..2005]	[183..1766]
gi\|15233734 - gi\|15233734\|ref\|NP_195533.1\| guanine nucleotide exchange family protein [Arabidopsis thaliana]	0.0	[225..1998]	[15..1688]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[113..1701]	[2..1570]

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Predicted Domain #1

Region A:
Residues: [1-355]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEQNSVVNA EKGDGEISSN VETASSVNPS VKPQNAIKEE AKETNGEDQK CKGPENAGST  60
   61 AETKETSNDA TNGMKTPEET EDTNDKRHDD EGEDGDEDED EDEDEDEDNG DEDDEDVDSS 120
  121 SSETSSEDGE DSESVSGEST ESSSGEDEES DESDGNTSNS SSGDESGSEE EEEEEEEEEE 180
  181 EENAGEPAIA HQDSVPTNDS TAPRSTHTRN ISLSSNGSNT NSTIILVKTT LETILNDKDI 240
  241 KKNSNAQKAI ERTLQKFKEF DPQTTNNPHY VDSILVFEAL RASCRTKSSK VQSLALDCLS 300
  301 KLFSFRSLDE TLLVNPPDSL ASNDQRQDAA DGITPPPKQK IIDAAIDTIS DCFQG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.221849
Match:	1i84S_
Description:	Heavy meromyosin subfragment
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [356-777]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EGTDDRVELQ IVRALSSCIL EEDSSSLCHG ASLLKAIRTI YNVFVFSLNP SNQGIAQATL  60
   61 TQIISSVYDK IDLKQSTSSA VSLSTKNHQQ QSAIELSEAS ENAETPAPLT LENMDKLNDD 120
  121 EERLMDAQQP DSIAITNQDL AVKDAFLVFR VMAKICAKPL ETELDMRSHA VRSKLLSLHI 180
  181 IYSIIKDHID VFLSHNIFLP GKERVCFIDS IRQYLRLVLS RNAASPLAPV FEVTLEIMWL 240
  241 LIANLRADFV KEIPVFLTEI YFPISELTTS TSQQKRYFLS VIQRICNDPR TLVEFYLNYD 300
  301 CNPGMPNVME ITVDYLTRLA LTRVEITQTQ RSYYDEQISK SLSTYNFSQL PLLTSSNLSS 360
  361 SPDVGQVNLL FPLDFALKMV SLNCIVSVLR SLSSWAHKAL NPNTHTANKV LLNTTSSARQ 420
  421 ES

[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.

Predicted Domain #3

Region A:
Residues: [778-897]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RSSLSNDVRS SIMTSNDDFK PTYEDEESRS LSSQNIDADD PTQFENLKLR KTALSECIAI  60
   61 FNNKPKKAIP VLIKKGFLKD DSPISIAKWL LETEGLDMAA VGDYLGEGDD KNIAIMHAFV 120
  121

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	520.36704
Match:	1pbv__
Description:	Exchange factor ARNO
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [898-1032]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DEFDFTGMSI VDALRSFLQS FRLPGEGQKI DRFMLKFAER FVDQNPGVFS KADTAYVLSY  60
   61 SLIMLNTDLH SSQIKNKMSL QEFLENNEGI DNGRDLPRDF LEGLFNEIAN NEIKLISEQH 120
  121 QAMLSGDTNL VQQQQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	520.36704
Match:	1pbv__
Description:	Exchange factor ARNO
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [1033-1325]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SAFNFFNSRD LTREAYNQVS KEISSKTELV FKNLNKNKGG PDVYYAASHV EHVKSIFETL  60
   61 WMSFLAALTP PFKDYDDIDT TNKCLEGLKI SIKIASTFRI NDARTSFVGA LVQFCNLQNL 120
  121 EEIKVKNVNA MVILLEVALS EGNYLEGSWK DILLVVSQME RLQLISKGID RDTVPDVAQA 180
  181 RVANPRVSYE SSRSNNTSFF DVWGKKATPT ELAQEKHHNQ TLSPEISKFI SSSELVVLMD 240
  241 NIFTKSSELS GNAIVDFIKA LTAVSLEEIE SSENASTPRM FSLQKMVDVC YYN

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	13.23
Match:	1b3uA
Description:	Constant regulatory domain of protein phosphatase 2a, pr65alpha
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ARF guanyl-nucleotide exchange factor activity	6.57705646633597	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	2.34270596875878	bayes_pls_golite062009
GTPase regulator activity	2.33775275044058	bayes_pls_golite062009
enzyme regulator activity	2.18282128472415	bayes_pls_golite062009
guanyl-nucleotide exchange factor activity	2.13694141859871	bayes_pls_golite062009
small GTPase regulator activity	1.9528150458215	bayes_pls_golite062009
binding	1.48136085083473	bayes_pls_golite062009
protein binding	0.709918436973955	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [1326-1401]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDRIKLEWTP LWAVMGKAFN KIATNSNLAV VFFAIDSLRQ LSMRFLDIEE LSGFEFQHDF  60
   61 LKPFEYTVQN SGNTEV

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	13.23
Match:	1b3uA
Description:	Constant regulatory domain of protein phosphatase 2a, pr65alpha
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [1402-1708]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QEMIIECFRN FILTKSESIK SGWKPILESL QYTARSSTES IVLKTQLLVS NDIVTNHFEN  60
   61 VFSQEDAFSE LVGVFREITK NKRFQKLSLH ALESLRKMTQ NVADICFYNE NKTEEERKHN 120
  121 DALLRGKDIF QDVWFPMLFC FNDTIMTAED LEVRSRALNY MFDALVAYGG KFNDDFWEKI 180
  181 CKKLLFPIFG VLSKHWEVNQ FNSHDDLSVW LSTTLIQALR NLIALFTHYF ESLNRMLDGF 240
  241 LGLLVSCICQ ENDTIARIGR SCLQQLILQN VSKFNEYHWN QIGDVFDKLF DLTTANELFD 300
  301 YDPLQQG

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	13.23
Match:	1b3uA
Description:	Constant regulatory domain of protein phosphatase 2a, pr65alpha
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.23589314549461	bayes_pls_golite062009
transcription factor activity	3.20154674515543	bayes_pls_golite062009
binding	1.86110799162977	bayes_pls_golite062009
transcription activator activity	1.49121387344133	bayes_pls_golite062009
transcription repressor activity	1.37470101715384	bayes_pls_golite062009
nucleic acid binding	1.23329188282806	bayes_pls_golite062009
DNA binding	1.13681181911191	bayes_pls_golite062009
protein binding	1.08484616730639	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.716405160484334	bayes_pls_golite062009
structural molecule activity	0.699916732836588	bayes_pls_golite062009
structural constituent of ribosome	0.642134554528826	bayes_pls_golite062009
ligase activity	0.480312224694405	bayes_pls_golite062009
catalytic activity	0.22314902412029	bayes_pls_golite062009
transcription factor binding	0.175826195692125	bayes_pls_golite062009
transporter activity	0.157041289238914	bayes_pls_golite062009
small conjugating protein ligase activity	0.11628064315417	bayes_pls_golite062009
ubiquitin-protein ligase activity	0.0898225651928188	bayes_pls_golite062009

Predicted Domain #8

Region A:
Residues: [1709-1771]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RKSSVSHHQT TNDTSQHSDD DSNDRRENDS NISETVERAH QEESSEDVGG DMVETLNGQT  60
   61 KLN

[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.

Predicted Domain #9

Region A:
Residues: [1772-2009]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NGNSVPTVKD ELNPKPASLS IPKKTKHMKR NESNEDIRRR INIKNSIVVK CVLQLLMIEL  60
   61 LNELFENEDF AHCIPYKEAI RITRLLEKSY EFSRDFNEDY GLRTRLVEAR VVDKIPNLLK 120
  121 QETSAAAVLL DIMFQLYLND DEKKADLITR LITICIQVVE GYVSLDDRTM ERSINAWRSV 180
  181 IVEILQGYYE FDDEDFRLYC PAMYALVIQI LDKSVPTELR HAIKQFLSRV GELYLSTD

[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.

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: