YRC Public Data Repository - Protein Structure Prediction

Protein:	rpb7
Organism:	Schizosaccharomyces pombe
Length:	172 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 rpb7.

Description	E-value	Query Range	Subject Range
gi\|50426557, gi\|... - gi\|50426557\|ref\|XP_461875.1\| hypothetical protein DEHA0G08195g [Debaryomyces hansenii CBS767], gi\|49... gi\|49657545 - gi\|49657545\|emb\|CAG90338.1\| DEHA2G07546p [Debaryomyces hansenii]	142.0	[0..3]	[171..2]
gi\|223640159, gi... - gi\|241948197\|ref\|XP_002416821.1\| DNA-directed RNA polymerase II 19 kda polypeptide, putative; DNA-di... gi\|12655858 - gi\|12655858\|gb\|AAK00627.1\| RNA polymerase II subunit 7 [Candida albicans] gi\|68475644, gi\|... - gi\|68475644\|ref\|XP_718170.1\| likely RNA Pol II core complex subunit [Candida albicans SC5314], gi\|68...	140.0	[0..3]	[171..2]
rpb-7 - status:Partially_confirmed UniProt:Q9N3C9 protein_id:AAF59550.1	138.0	[0..3]	[171..25]
gi\|45198920, gi\|... - gi\|45198920\|ref\|NP_985949.1\| AFR402Cp [Ashbya gossypii ATCC 10895], gi\|44984949\|gb\|AAS53773.1\| AFR40... gi\|44984949 - gi\|44984949\|gb\|AAS53773.1\| AFR402Cp [Ashbya gossypii ATCC 10895]	138.0	[0..3]	[172..2]
gi\|68517562, gi\|... - gi\|68544732\|ref\|ZP_00584344.1\| Exoribonuclease II [Shewanella baltica OS155], gi\|68517562\|gb\|EAN4121...	137.0	[0..5]	[170..266]
gi\|49641633, gi\|... - gi\|50305083\|ref\|XP_452500.1\| unnamed protein product [Kluyveromyces lactis], gi\|49641633\|emb\|CAH0135... gi\|49641633 - gi\|49641633\|emb\|CAH01351.1\| KLLA0C06787p [Kluyveromyces lactis]	137.0	[0..3]	[172..2]
gi\|38567178 - gi\|38567178\|emb\|CAE76471.1\| probable DNA-directed RNA polymerase II chain Rpb7 [Neurospora crassa]	136.0	[0..3]	[170..2]
gi\|78701235, gi\|... - gi\|78701235\|ref\|ZP_00865687.1\| Polyribonucleotide nucleotidyltransferase [Alkalilimnicola ehrlichei ...	136.0	[0..3]	[168..556]
gi\|82718443, gi\|... - gi\|82744208\|ref\|ZP_00906794.1\| Exoribonuclease II [Shewanella sp. W3-18-1], gi\|82718443\|gb\|EAP53423....	136.0	[0..5]	[162..185]
PNP_MAGMM - Polyribonucleotide nucleotidyltransferase OS=Magnetococcus marinus (strain ATCC BAA-1437 / JCM 17883... sp\|A0LE14\|PNP_MAGMM - Polyribonucleotide nucleotidyltransferase OS=Magnetococcus marinus (strain ATCC BAA-1437 / JCM 17883...	134.0	[0..3]	[166..535]

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Predicted Domain #1

Region A:
Residues: [1-172]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPFFLKELSL TISLHPSYFG PRMQDYLKAK LLADVEGTCS GQYGYIICVL DSNTIDIDKG  60
   61 RVVPGQGFAE FEVKYRAVLW RPFRGEVVDA IVTTVNKMGF FANIGPLNVF VSSHLVPPDM 120
  121 KFDPTANPPN YSGEDQVIEK GSNVRLKIVG TRTDATEIFA IATMKEDYLG VL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.0
Match:	2b8kG
Description:	No description for 2b8kG was found.

Predicted functions:

Term	Confidence	Notes
DNA-directed RNA polymerase activity	5.58573473432218	bayes_pls_golite062009
RNA polymerase activity	5.58573473432218	bayes_pls_golite062009
structural constituent of ribosome	5.1118741250402	bayes_pls_golite062009
structural molecule activity	4.51553901145182	bayes_pls_golite062009
nucleic acid binding	4.29626483284963	bayes_pls_golite062009
RNA binding	3.99161318590718	bayes_pls_golite062009
ribonuclease activity	3.83159232224897	bayes_pls_golite062009
DNA binding	3.53568546959418	bayes_pls_golite062009
nucleotidyltransferase activity	3.34659726705133	bayes_pls_golite062009
binding	2.83465364476231	bayes_pls_golite062009
	2.80746531284205	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	2.58106651553389	bayes_pls_golite062009
exoribonuclease activity	2.41262897171619	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	2.38378389593693	bayes_pls_golite062009
transcription regulator activity	2.10110937001387	bayes_pls_golite062009
transferase activity	2.03373182784225	bayes_pls_golite062009
structure-specific DNA binding	1.81524862921454	bayes_pls_golite062009
mRNA binding	1.660993824641	bayes_pls_golite062009
single-stranded DNA binding	1.62996999055328	bayes_pls_golite062009
translation regulator activity	1.46320772716954	bayes_pls_golite062009
translation factor activity, nucleic acid binding	1.40718318783582	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
protein binding	1.20309946451799	bayes_pls_golite062009
transcription activator activity	1.09079153283893	bayes_pls_golite062009
transcription factor activity	0.937752547283357	bayes_pls_golite062009
sequence-specific DNA binding	0.85691075793641	bayes_pls_golite062009
3'-5'-exoribonuclease activity	0.83268201349295	bayes_pls_golite062009
hydrolase activity	0.724860465280978	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.583085644017496	bayes_pls_golite062009
nuclease activity	0.57381531077345	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.474251377131502	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.47336621289748	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.47336621289748	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.223941674251642	bayes_pls_golite062009

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: