YRC Public Data Repository - Protein Structure Prediction

Protein:	SRB4
Organism:	Saccharomyces cerevisiae
Length:	687 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 SRB4.

Description	E-value	Query Range	Subject Range
gi\|51013783 - gi\|51013783\|gb\|AAT93185.1\| YER022W [Saccharomyces cerevisiae]	1221.0	[0..1]	[687..1]
MED17_CANGA - Mediator of RNA polymerase II transcription subunit 17 OS=Candida glabrata (strain ATCC 2001 / CBS 1... MED17_CANGA - Mediator of RNA polymerase II transcription subunit 17 OS=Candida glabrata GN=SRB4 PE=3 SV=1	569.0	[0..3]	[682..5]
MED17_ASHGO - Mediator of RNA polymerase II transcription subunit 17 OS=Ashbya gossypii GN=SRB4 PE=3 SV=1 MED17_ASHGO - Mediator of RNA polymerase II transcription subunit 17 OS=Ashbya gossypii (strain ATCC 10895 / CBS 1...	481.0	[0..5]	[682..2]
MED17_KLULA - Mediator of RNA polymerase II transcription subunit 17 OS=Kluyveromyces lactis GN=SRB4 PE=3 SV=1 MED17_KLULA - Mediator of RNA polymerase II transcription subunit 17 OS=Kluyveromyces lactis (strain ATCC 8585 / C...	441.0	[0..14]	[682..10]
srb4 - mediator complex subunit Srb4 MED17_SCHPO - Mediator of RNA polymerase II transcription subunit 17 OS=Schizosaccharomyces pombe (strain 972 / AT...	253.0	[0..99]	[314..34]
MED17_YARLI - Mediator of RNA polymerase II transcription subunit 17 OS=Yarrowia lipolytica GN=SRB4 PE=3 SV=1 MED17_YARLI - Mediator of RNA polymerase II transcription subunit 17 OS=Yarrowia lipolytica (strain CLIB 122 / E 1...	130.0	[0..87]	[461..10]
MED17_EMENI - Mediator of RNA polymerase II transcription subunit 17 OS=Emericella nidulans GN=srb4 PE=3 SV=1 MED17_EMENI - Mediator of RNA polymerase II transcription subunit 17 OS=Emericella nidulans (strain FGSC A4 / ATCC...	130.0	[0..149]	[564..27]
MED17_ASPFU - Mediator of RNA polymerase II transcription subunit 17 OS=Neosartorya fumigata (strain ATCC MYA-4609... MED17_ASPFU - Mediator of RNA polymerase II transcription subunit 17 OS=Aspergillus fumigatus GN=srb4 PE=3 SV=1	123.0	[0..191]	[586..71]
MED17_ASPOR - Mediator of RNA polymerase II transcription subunit 17 OS=Aspergillus oryzae GN=srb4 PE=3 SV=1 MED17_ASPOR - Mediator of RNA polymerase II transcription subunit 17 OS=Aspergillus oryzae (strain ATCC 42149 / RI...	112.0	[0..178]	[576..59]

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Predicted Domain #1

Region A:
Residues: [1-342]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTTEDPDSNH LSSETGIKLA LDPNLITLAL SSNPNSSLHS PTSDEPVPES AGKADTSIRL  60
   61 EGDELENKTK KDNDKNLKFL KNKDSLVSNP HEIYGSMPLE QLIPIILRQR GPGFKFVDLN 120
  121 EKELQNEIKQ LGSDSSDGHN SEKKDTDGAD ENVQIGEDFM EVDYEDKDNP VDSRNETDHK 180
  181 TNENGETDDN IETVMTQEQF VKRRRDMLEH INLAMNESSL ALEFVSLLLS SVKESTGMSS 240
  241 MSPFLRKVVK PSSLNSDKIP YVAPTKKEYI ELDILNKGWK LQSLNESKDL LRASFNKLSS 300
  301 ILQNEHDYWN KIMQSISNKD VIFKIRDRTS GQKLLAIKYG YE

[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: [343-415]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DSGSTYKHDR GIANIRNNIE SQNLDLIPHS SSVFKGTDFV HSVKKFLRVR IFTKIESEDD  60
   61 YILSGESVMD RDS

[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: [416-687]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ESEEAETKDI RKQIQLLKKI IFEKELMYQI KKECALLISY GVSIENENKV IIELPNEKFE  60
   61 IELLSLDDDS IVNHEQDLPK INDKRANLML VMLRLLLVVI FKKTLRSRIS SPHGLINLNV 120
  121 DDDILIIRPI LGKVRFANYK LLLKKIIKDY VLDIVPGSSI TETEVEREQP QENKNIDDEN 180
  181 ITKLNKEIRA FDKLLNIPRR ELKINLPLTE HKSPNLSLML ESPNYCNALI HIKFSAGTEA 240
  241 NAVSFDTTFS DFKEVEDFLH FIVAEYIQQK KV

[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