YRC Public Data Repository - Protein Structure Prediction

Protein:	RTF1_SCHPO
Organism:	Schizosaccharomyces pombe 972h-
Length:	560 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 RTF1_SCHPO.

Description	E-value	Query Range	Subject Range
gi\|50748171 - gi\|50748171\|ref\|XP_421139.1\| PREDICTED: similar to KIAA0252 [Gallus gallus]	363.0	[0..77]	[546..375]
RTF1_MOUSE - RNA polymerase-associated protein RTF1 homolog OS=Mus musculus GN=Rtf1 PE=1 SV=1	321.0	[0..13]	[546..129]
gi\|109468683, gi... - gi\|109470672\|ref\|XP_001080858.1\| PREDICTED: similar to Paf1/RNA polymerase II complex component [Rat...	320.0	[0..13]	[546..128]
gi\|85085889 - gi\|85085889\|ref\|XP_957595.1\| hypothetical protein NCU03956 [Neurospora crassa OR74A] gi\|32405324, gi\|... - gi\|40882327\|emb\|CAF06149.1\| related to Pol II transcription elongation factor [Neurospora crassa], g...	320.0	[0..1]	[560..1]
gi\|67536800, gi\|... - gi\|67536800\|ref\|XP_662174.1\| hypothetical protein AN4570.2 [Aspergillus nidulans FGSC A4], ref\|XP_40...	316.0	[0..3]	[560..4]
gi\|73999803 - gi\|73999803\|ref\|XP_544630.2\| PREDICTED: similar to Paf1/RNA polymerase II complex component isoform ...	315.0	[0..77]	[546..188]
gi\|109080731 - gi\|109080731\|ref\|XP_001100507.1\| PREDICTED: similar to Paf1/RNA polymerase II complex component [Mac...	315.0	[0..77]	[546..185]
gi\|195976782 - gi\|195976782\|ref\|NP_055953.3\| Paf1/RNA polymerase II complex component [Homo sapiens] gi\|114656497 - gi\|114656497\|ref\|XP_001142072.1\| PREDICTED: Paf1/RNA polymerase II complex component [Pan troglodyte...	315.0	[0..77]	[546..184]
gi\|76627390 - gi\|76627390\|ref\|XP_596446.2\| PREDICTED: similar to KIAA0252 isoform 1 [Bos taurus]	315.0	[0..77]	[546..188]

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Predicted Domain #1

Region A:
Residues: [1-213]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MADFQDELLA LAGIDDSDVA SNRKRAHDDL DDVLSSSSDE DNNENVGQDY AEESGGEGNE  60
   61 KSEDEFEEKF KNPYRLEGKF KDEADRAKIM AMTEIERESI LFEREEEISK LMERRELAIR 120
  121 LHQQNAQYMA QSTRRSTRDK PLTSAAAGKR DKLTELKKRR QERSARSVSE RTRKRSPVSD 180
  181 YEEQNESEKS EEEEGYSPSY AEEKVEQVSK DNA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.69897
Match:	1i84S
Description:	Heavy meromyosin subfragment
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [214-347]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SANLYDLNAI RLGRKHVAEY MYHPIFESTV TGCFVRVKIG ERDGQGVYRL CQVKGILESR  60
   61 KPYRVDGVLT KVSLECFHGR SKRVFDVNVL SNEPFSDHDF QRWHHQMMED KLSMPSKNFV 120
  121 QRKLNDLRDM SKYV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	45.221849
Match:	2bzeA
Description:	No description for 2bzeA was found.

Predicted Domain #3

Region A:
Residues: [348-560]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSEKEVSDII NRKKELSRVP SNIAAEKTRL RQRRQAAYVA GNAELVKEID DQLNTLEELS  60
   61 MGSNQNSNSA MDQLAKVNER NRRRNHTEIR LAEQRMNEER RRLSAAATAT PMSAPTSVLT 120
  121 GTSPQPSPSL STSIMSTPKL NPSESVVVAS EKASSPDLSP KLLPSESQIF DEGIAVTQTP 180
  181 NTLEDKDFKL HEKAVHGIDD IIATVDFGID INI

[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