YRC Public Data Repository - Protein Structure Prediction

Protein:	MED6
Organism:	Saccharomyces cerevisiae
Length:	295 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 MED6.

Description	E-value	Query Range	Subject Range
MED6_CANGA - Mediator of RNA polymerase II transcription subunit 6 OS=Candida glabrata (strain ATCC 2001 / CBS 13... MED6_CANGA - Mediator of RNA polymerase II transcription subunit 6 OS=Candida glabrata GN=MED6 PE=3 SV=1	253.0	[0..4]	[295..3]
MED6_NEUCR - Mediator of RNA polymerase II transcription subunit 6 OS=Neurospora crassa (strain ATCC 24698 / 74-O... MED6_NEUCR - Mediator of RNA polymerase II transcription subunit 6 OS=Neurospora crassa GN=med-6 PE=3 SV=1	253.0	[0..5]	[262..12]
MED6_KLULA - Mediator of RNA polymerase II transcription subunit 6 OS=Kluyveromyces lactis GN=MED6 PE=3 SV=1 MED6_KLULA - Mediator of RNA polymerase II transcription subunit 6 OS=Kluyveromyces lactis (strain ATCC 8585 / CB...	229.0	[0..1]	[295..1]
MED6_ASHGO - Mediator of RNA polymerase II transcription subunit 6 OS=Ashbya gossypii GN=MED6 PE=3 SV=1 MED6_ASHGO - Mediator of RNA polymerase II transcription subunit 6 OS=Ashbya gossypii (strain ATCC 10895 / CBS 10...	218.0	[0..1]	[295..1]
MED6_SCHPO - Mediator of RNA polymerase II transcription subunit 6 OS=Schizosaccharomyces pombe (strain 972 / ATC... pmc5 - mediator complex subunit Pmc5	211.0	[0..6]	[217..11]
MED6-PA, FBpp030... - The gene Mediator complex subunit 6 is referred to in FlyBase by the symbol Dmel\MED6 (CG9473, FBgn0... gi\|220942424 - gi\|220942424\|gb\|ACL83755.1\| MED6-PA [synthetic construct]	204.0	[0..9]	[229..13]
gi\|62896733 - gi\|62896733\|dbj\|BAD96307.1\| mediator of RNA polymerase II transcription, subunit 6 homolog [Homo sap...	203.0	[0..9]	[204..13]
gi\|26354242 - gi\|26354242\|dbj\|BAC40749.1\| unnamed protein product [Mus musculus]	203.0	[0..9]	[204..13]
gi\|114653738 - gi\|114653738\|ref\|XP_001146060.1\| PREDICTED: hypothetical protein LOC453004 isoform 1 [Pan troglodyte... gi\|2618738, gi\|1... - gi\|2618738\|gb\|AAB84363.1\| RNA polymerase transcriptional regulation mediator [Homo sapiens], gi\|1196...	203.0	[0..9]	[204..13]
gi\|165970989, gi... - gi\|34867365\|ref\|XP_216759.2\| PREDICTED: similar to RNA polymerase transcriptional regulation mediato...	203.0	[0..9]	[204..13]

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Predicted Domain #1

Region A:
Residues: [1-232]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNVTPLDELQ WKSPEWIQVF GLRTENVLDY FAESPFFDKT SNNQVIKMQR QFSQLNDPNA  60
   61 AVNMTQNIMT LPDGKNGNLE EEFAYVDPAR RQILFKYPMY MQLEEELMKL DGTEYVLSSV 120
  121 REPDFWVIRK QRRTNNSGVG SAKGPEIIPL QDYYIIGANI YQSPTIFKIV QSRLMSTSYH 180
  181 LNSTLESLYD LIEFQPSQGV HYKVPTDTST TATAATNGNN AGGGSNKSSV RP

[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 #2

Region A:
Residues: [233-295]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TGGANMATVP STTNVNMTVN TMGTGGQTID NGTGRTGNGN MGITTEMLDK LMVTSIRSTP  60
   61 NYI

[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	0.496	d.82.1	Copper amine oxidase, domain N
View	Download	0.436	d.82.1	Copper amine oxidase, domain N
View	Download	0.425	d.10.1	DNA-binding domain
View	Download	0.411	a.60.4	DNA repair protein Rad51, N-terminal domain
View	Download	0.379	a.36.1	Signal peptide-binding domain
View	Download	0.379	a.36.1	Signal peptide-binding domain
View	Download	0.355	d.58.11	EF-G/eEF-2 domains III and V
View	Download	0.348	d.42.1	POZ domain
View	Download	0.348	d.42.1	POZ domain
View	Download	0.324	a.60.1	SAM/Pointed 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