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View Structure Prediction Details

Protein: NAF1
Organism: Saccharomyces cerevisiae
Length: 492 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 NAF1.

Description E-value Query
Range
Subject
Range
NAF1 - RNA-binding protein required for the assembly of box H/ACA snoRNPs and thus for pre-rRNA processing,...
NAF1_YEAST - H/ACA ribonucleoprotein complex non-core subunit NAF1 OS=Saccharomyces cerevisiae (strain ATCC 20450...
4.0E-78 [1..467] [1..467]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
6.0E-67 [147..483] [1378..1688]
gi|7494259 - pir||T18492 hypothetical protein C0805w - malaria parasite (Plasmodium falciparum)
gi|124505021, gi... - gi|3758846|emb|CAB11131.1| DNA-directed RNA polymerase II, putative [Plasmodium falciparum 3D7], gi|...
5.0E-52 [136..481] [2016..2411]
gi|4808166 - gi|4808166|emb|CAB42797.1| largest subunit of the RNA polymerase II complex [Drosophila pseudoobscur...
9.0E-52 [187..463] [1485..1805]
gi|12642614 - gi|12642614|gb|AAK00311.1|AF315821_1 DNA-dependent RNA polymerase II largest subunit RPB1 [Monosiga ...
1.0E-51 [135..462] [1357..1738]
gi|40217297, gi|... - gi|4808164|emb|CAB42795.1| largest subunit of the RNA polymerase II complex [Drosophila guanche], gi...
2.0E-51 [187..463] [1563..1883]
gi|9943, gi|66976 - gi|9943|emb|CAA34560.1| unnamed protein product [Plasmodium falciparum], pir||RNZQ2L DNA-directed RN...
RPB1_PLAFD - DNA-directed RNA polymerase II subunit RPB1 OS=Plasmodium falciparum (isolate CDC / Honduras) GN=RPI...
2.0E-50 [136..481] [2018..2406]
NAF1_SCHPO - H/ACA ribonucleoprotein complex non-core subunit NAF1 OS=Schizosaccharomyces pombe (strain 972 / ATC...
SPBC30D10.15 - snoRNP assembly factor
3.0E-49 [4..385] [119..514]

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Predicted Domain #1
Region A:
Residues: [1-126]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDDLFSKAL ENPDQDLNVE LPKDDVDLGL LGDGGNERKT DEPVADAERS TGLGSGSSES  60
   61 ESDSGSDSDS DSGSSGSEDD SADQDVEGED EGGDAIENED EDEDPSPSGP ILSKNEILEE 120
  121 TVPELP

[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: [127-291]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EDYEISEKTI ITPIGVLKSA FENNIIIHAT MSGEKRVLKE GSIFCLEDRT LIGMLTEVFG  60
   61 PLQNPFYRIK LPDSKKNLFD ELKVRLGEKA FIVTPDAHWI DTFELKRNKG TDASNGYDEE 120
  121 LPEEEQEFSD DEKEALFKKM KKQQRQRKKR DNRKLANDSD NVKVK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 10.0
Match: 1k83A_
Description: RBP1
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [292-492]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RARQPKANSL PKLVPPLGMS SNAPMQHGYK SRNARENIKR ESSATSNRNG SSPVPITQHH  60
   61 QQQFSANNYP FPQQPNGMPY PPYSPFPQPT NFQYPPPPFG QATPAQFSNT VPYGSLPPAY 120
  121 NNMSPPTQQS FMPMTQSQPP LPYGVPPMNQ MQNPMYIQPP PQAPPQGNGN FQQVMELHQI 180
  181 LLQQQQQQHQ YQHQHQQDPR T

[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: [390-492]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FGQATPAQFS NTVPYGSLPP AYNNMSPPTQ QSFMPMTQSQ PPLPYGVPPM NQMQNPMYIQ  60
   61 PPPQAPPQGN GNFQQVMELH QILLQQQQQQ HQYQHQHQQD PRT

[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.


YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle