YRC Public Data Repository - Protein Structure Prediction

Protein:	RTF1
Organism:	Saccharomyces cerevisiae
Length:	558 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 RTF1.

Description	E-value	Query Range	Subject Range
gi\|190407177 - gi\|190407177\|gb\|EDV10444.1\| protein RTF1 [Saccharomyces cerevisiae RM11-1a] RTF1_YEAST - RNA polymerase-associated protein RTF1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=R... RTF1 - Subunit of the RNA polymerase II-associated Paf1 complex; directly or indirectly regulates DNA-bindi...	0.0	[1..558]	[1..558]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	2.0E-93	[101..558]	[1..458]
RTF1_SCHPO - RNA polymerase-associated protein C651.09c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN... SPBC651.09c - RNA polymerase II associated Paf1 complex	2.0E-82	[1..483]	[1..453]
VIP5_ARATH - Protein RTF1 homolog OS=Arabidopsis thaliana GN=VIP5 PE=1 SV=1	6.0E-65	[13..507]	[37..525]
gi\|19421557 - gi\|19421557\|gb\|AAK56405.1\| chromodomain helicase DNA binding protein 5 [Homo sapiens]	9.0E-62	[32..424]	[85..463]
kis-PA - The gene kismet is referred to in FlyBase by the symbol Dmel\kis (CG3696, FBgn0086902). It is a prot...	4.0E-57	[39..424]	[1663..2033]
gi\|9588690 - gi\|9588690\|emb\|CAC00636.1\| CPRF interacting protein [Petroselinum crispum]	9.0E-56	[91..455]	[5..362]

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Predicted Domain #1

Region A:
Residues: [1-230]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDLDEDLLA LAGADESEEE DQVLTTTSAK RAKNNDQSLS KKRRIEVGSV EDDDEEDDYN  60
   61 PYSVGNADYG SEEEEEANPF PLEGKYKDES DREHLESLPE MERETLLFER SQIMQKYQER 120
  121 KLFRARGRDM KEQQQRAKND EDSRKTRAST RSTHATGHSD IKASKLSQLK KQRARKNRHY 180
  181 SDNEDEDDEE DYREEDYKDD EGSEYGDDEE YNPFDRRDTY DKREEVEWAE

[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 #2

Region A:
Residues: [231-350]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EEDEQDREPE ISDFNKLRIG RSFVAKFCFY PGFEDAVKGC YGRVNVGTDK RTGKTSYRMV  60
   61 RIERVFLQKP YNMGKFYTNQ YFGVTQGKDR KVFQMNYFSD GLFAEDEYQR YLRALDNSQM 120
  121

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	48.537602
Match:	PF03126
Description:	Plus-3 domain

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: [351-558]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IKPSLHSLSN KTKEVMDFVN TPLTDKTTDE VVRHRMQFNK KLSGTNAVLE KTVLREKLQY  60
   61 AKETNNEKDI AKYSAQLRNF EKRMSVYEKH HENDQSDIKK LGELTSKNRK LNMSNIRNAE 120
  121 HVKKEDSNNF DSKSDPFSRL KTRTKVYYQE IQKEENAKAK EIAQQEKLQE DKDAKDKREK 180
  181 ELLVAQFRRL GGLERMVGEL DIKFDLKF

[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