YRC Public Data Repository - Protein Structure Prediction

Protein:	srb8
Organism:	Schizosaccharomyces pombe
Length:	1233 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 srb8.

Description	E-value	Query Range	Subject Range
SRB8_NEUCR - Mediator of RNA polymerase II transcription subunit 12 OS=Neurospora crassa GN=srb-8 PE=3 SV=1 SRB8_NEUCR - Mediator of RNA polymerase II transcription subunit 12 OS=Neurospora crassa (strain ATCC 24698 / 74-...	625.0	[0..49]	[551..291]
gi\|42549822, gi\|... - gi\|46128519\|ref\|XP_388813.1\| hypothetical protein FG08637.1 [Gibberella zeae PH-1], gi\|42549822\|gb\|E...	608.0	[0..35]	[558..183]
gi\|114189237, gi... - gi\|115402629\|ref\|XP_001217391.1\| conserved hypothetical protein [Aspergillus terreus NIH2624], gi\|11...	413.0	[0..50]	[550..227]
gi\|83773225 - gi\|83773225\|dbj\|BAE63352.1\| unnamed protein product [Aspergillus oryzae] gi\|169780042 - gi\|169780042\|ref\|XP_001824485.1\| hypothetical protein [Aspergillus oryzae RIB40]	400.0	[0..26]	[551..177]
gi\|88182255, gi\|... - gi\|88182255\|gb\|EAQ89723.1\| hypothetical protein CHGG_06342 [Chaetomium globosum CBS 148.51], gi\|1161...	387.0	[0..51]	[551..114]
SRB8 - Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form ... SRB8_YEAST - Mediator of RNA polymerase II transcription subunit 12 OS=Saccharomyces cerevisiae (strain ATCC 2045...	370.0	[0..27]	[538..2]
gi\|71000599, gi\|... - gi\|71000599\|ref\|XP_754981.1\| hypothetical protein Afu3g06250 [Aspergillus fumigatus Af293], gi\|66852...	365.0	[0..99]	[549..203]
SRB8_ASHGO - Mediator of RNA polymerase II transcription subunit 12 OS=Ashbya gossypii (strain ATCC 10895 / CBS 1... SRB8_ASHGO - Mediator of RNA polymerase II transcription subunit 12 OS=Ashbya gossypii GN=SRB8 PE=3 SV=1	350.0	[0..29]	[378..2]
SRB8_PHANO - Mediator of RNA polymerase II transcription subunit 12 OS=Phaeosphaeria nodorum (strain SN15 / ATCC ... SRB8_PHANO - Mediator of RNA polymerase II transcription subunit 12 OS=Phaeosphaeria nodorum GN=SRB8 PE=3 SV=1	321.0	[0..36]	[545..126]
gi\|109510916, gi... - gi\|109511981\|ref\|XP_001060292.1\| PREDICTED: similar to Mediator of RNA polymerase II transcription s...	312.0	[0..30]	[328..8]

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Predicted Domain #1

Region A:
Residues: [1-118]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNRDSANPP GFNDAVPLAI CYIDSSTSSH DEYLTLLQSK VSAPDKNFRD ETVDGAPFLA  60
   61 GDAISKGHRY SPPVRSDRAS AQGLLQQHLE KSSTLENLKR YSSTLLGRQN DAVIDEPF

[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 #2

Region A:
Residues: [119-222]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 APFRPPPRVT LSESRRDRWL QGLSDPMVPL SSLIKTIPHG LWGEDILRML VKFRVPFTRA  60
   61 IWFIRCAGVN EARSFLRKVQ TTDITEWVKN WTDVAAGFLI SFIS

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	36.508638
Match:	PF09497.1
Description:	No description for PF09497.1 was found.

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 #3

Region A:
Residues: [223-342]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SFLNADIYSF ADDYTYLLKL FGRLLAEELV SPKHFLLRIV SFSGDSSLKS FSLHFFALQF  60
   61 FSTSLIQYTH ICRKCVITIL QSYQQLIVDQ PANLLKFSLL SKKVSHFLFT LAQKNIESFF 120
  121

[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 #4

Region A:
Residues: [343-552]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FPTEWDKLKP TIILLWKDFP NYSTLLSIMQ ERNSKAMYMY KPVTSSIRFL QIISCLSFPV  60
   61 GWRTLAKDLF KLLPVYTGVP LLLHWCINCR SIFSGDRNFI VSSIFDNANF DRNLIVDLTL 120
  121 SFVLKLHPLE YNECVAAAQL LDHLAACGYF FFSKYIARLA SLGYLRESML NSSFMDDQRK 180
  181 ILVQLPILRM SQQLKNKIYY ILSKGNYFVD

[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 #5

Region A:
Residues: [553-689]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WSICDEYVKR FKEDHFSFMF KKEENYAIIT LSLVKIASTP MSKLYEDYLV MLFAFHYSMF  60
   61 QVMTKLIADN LVHFSFQSCA CQTLFFICSV VPKTESQKLL LNEMGKLFQV ELNFSYDSPD 120
  121 VNLLIEQFYE ITSYESN

[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	SCOP Match	SCOP Description
View	Download	0.892	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore

Predicted Domain #6

Region A:
Residues: [690-813]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YDDAFVEYKD ATVANRKDFI EFLFHNITVS SKHTAVIFTS DLLMVLKIAL NHPPYFDDLA  60
   61 TTTFSSLLKR DECTILSFFK ILQFYGCKLL SVDQIWAVVS DVYEAQDNNT TLKQFFNYLL 120
  121 DEST

[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	SCOP Match	SCOP Description
View	Download	0.936	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin

Predicted Domain #7

Region A:
Residues: [814-959]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WPEGYLEERH WRSILCKEAR KHDSGLKLFK LGIKLCTRNE QIMKTIWSFI HVHDCNVISE  60
   61 VIPDQRFLRT LTEHFMIDLR QLDIVTCLKK ALVTLDEFSA PLYATWLTTL DDDELSELTD 120
  121 DVVQKKVLES LDNYKSGIWK LVLSGL

[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 #8

Region A:
Residues: [960-1233]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PNCKTVFEHL LLFSLEERLD LPAAFLQDLI GASAYVMEQV PDSWFLEKLP CPLTQSLQSF  60
   61 SHLSNHIEVL DSTRQSRLTF LCHLILHMHG FVELTDQLAT LESLTIRKCI YRNQELLDLL 120
  121 LFSIHLVKPN VETNDEVCNT LKAWENIESR PYTIDFPEAL QQYSPRIVLH LFSFFYWKCQ 180
  181 HDDYLQENTS SKNNLLQKEW ILITKKKVIL EQCEYVILDI LNFLKFSGIP TQSKKRLEVH 240
  241 MLNFISSTLY LKVSFCSSNF LFKTISVLVY DLIT

[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