YRC Public Data Repository - Protein Structure Prediction

Protein:	RPC11
Organism:	Saccharomyces cerevisiae
Length:	110 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 RPC11.

Description	E-value	Query Range	Subject Range
gi\|190404984 - gi\|190404984\|gb\|EDV08251.1\| DNA-directed RNA polymerases III 12.5 kDa polypeptide [Saccharomyces cer... RPC11 - RNA polymerase III subunit C11; mediates pol III RNA cleavage activity and is important for terminat... ORFP:3914 - YDR045C, Contig c130 7458-7790 reverse complement RPC10_YEAST - DNA-directed RNA polymerase III subunit RPC10 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288... gi\|151942036 - gi\|151942036\|gb\|EDN60392.1\| RNA polymerase C [Saccharomyces cerevisiae YJM789]	1.0E-31	[1..110]	[1..110]
gi\|18893037, gi\|... - gi\|18977358\|ref\|NP_578715.1\| DNA-directed RNA polymerase subunit M [Pyrococcus furiosus DSM 3638], g...	1.0E-27	[1..108]	[1..107]
gi\|12862220 - gi\|12862220\|dbj\|BAB32384.1\| unnamed protein product [Mus musculus]	3.0E-27	[1..109]	[1..108]
gi\|15623381, gi\|... - gi\|15922591\|ref\|NP_378260.1\| putative DNA-directed RNA polymerase subunit M [Sulfolobus tokodaii str...	3.0E-27	[2..109]	[1..110]
POLR3K - polymerase (RNA) III (DNA directed) polypeptide K, 12.3 kDa gi\|157929168, gi... - gi\|157929168\|gb\|ABW03869.1\| polymerase (RNA) III (DNA directed) polypeptide K, 12.3 kDa [synthetic c... tr\|M3WAT9\|M3WAT9... - DNA-directed RNA polymerase subunit OS=Felis catus GN=POLR3K PE=3 SV=1	6.0E-27	[1..109]	[1..108]
TFS_SULAC - Transcription factor S OS=Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 1... RPOM_SULAC - DNA-directed RNA polymerase subunit M OS=Sulfolobus acidocaldarius GN=rpoM PE=3 SV=2	7.0E-27	[1..109]	[91..200]
TFS_THECE - Transcription factor S OS=Thermococcus celer GN=tfs PE=1 SV=1	8.0E-27	[2..108]	[1..107]
gi\|5458798, gi\|7... - pir\|\|H75048 DNA-directed RNA polymerase (EC 2.7.7.6) chain M PAB1464 - Pyrococcus abyssi (strain Ors... gi\|5458798, gi\|1... - gi\|5458798\|emb\|CAB50285.1\| tfs archaeal transcription factor S [Pyrococcus abyssi GE5], gi\|14521579\|...	1.0E-26	[1..108]	[1..107]

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Predicted Domain #1

Region A:
Residues: [1-56]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLSFCPSCNN MLLITSGDSG VYTLACRSCP YEFPIEGIEI YDRKKLPRKE VDDVLG

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	23.677781
Match:	PF02150
Description:	RNA polymerases M/15 Kd subunit

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: [57-110]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GGWDNVDQTK TQCPNYDTCG GESAYFFQLQ IRSADEPMTT FYKCVNCGHR WKEN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	91.9897
Match:	1qyp__
Description:	RBP9 subunit of RNA polymerase II
Matching Structure (courtesy of the PDB):

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