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View Structure Prediction Details

Protein: NAM7
Organism: Saccharomyces cerevisiae
Length: 971 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 NAM7.

Description E-value Query
Range
Subject
Range
NAM7 - ATP-dependent RNA helicase of the SFI superfamily involved in nonsense mediated mRNA decay; required...
NAM7_YEAST - ATP-dependent helicase NAM7 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NAM7 PE=1 SV...
gi|207342353 - gi|207342353|gb|EDZ70140.1| YMR080Cp-like protein [Saccharomyces cerevisiae AWRI1631]
0.0 [1..971] [1..971]
gi|3328175, gi|1... - gi|3328175|gb|AAC26788.1| nonsense-mediated mRNA decay trans-acting factor [Homo sapiens], gi|273935...
0.0 [12..878] [84..942]
gi|12836885, gi|... - gi|13507601|ref|NP_109605.1| regulator of nonsense transcripts 1 [Mus musculus], gi|12836885|gb|AAK0...
0.0 [12..878] [79..937]
gi|220960128 - gi|220960128|gb|ACL92600.1| Upf1-PA [synthetic construct]
FBpp0309612, Upf1-PA - The gene Upf1 is referred to in FlyBase by the symbol Dmel\Upf1 (CG1559, FBgn0030354). It is a prote...
0.0 [35..865] [73..909]
RENT1_TAKRU - Putative regulator of nonsense transcripts 1 OS=Takifugu rubripes GN=rent1 PE=3 SV=1
0.0 [12..878] [65..920]
gi|19577367 - gi|19577367|emb|CAD28448.1| possible regulator of nonsense transcripts [Aspergillus fumigatus]
0.0 [26..924] [14..933]

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Predicted Domain #1
Region A:
Residues: [1-224]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVGSGSHTPY DISNSPSDVN VQPATQLNST LVEDDDVDNQ LFEEAQVTET GFRSPSASDN  60
   61 SCAYCGIDSA KCVIKCNSCK KWFCNTKNGT SSSHIVNHLV LSHHNVVSLH PDSDLGDTVL 120
  121 ECYNCGRKNV FLLGFVSAKS EAVVVLLCRI PCAQTKNANW DTDQWQPLIE DRQLLSWVAE 180
  181 QPTEEEKLKA RLITPSQISK LEAKWRSNKD ATINDIDAPE EQEA

[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: [225-389]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IPPLLLRYQD AYEYQRSYGP LIKLEADYDK QLKESQALEH ISVSWSLALN NRHLASFTLS  60
   61 TFESNELKVA IGDEMILWYS GMQHPDWEGR GYIVRLPNSF QDTFTLELKP SKTPPPTHLT 120
  121 TGFTAEFIWK GTSYDRMQDA LKKFAIDKKS ISGYLYYKIL GHQVV

[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 #3
Region A:
Residues: [390-638]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DISFDVPLPK EFSIPNFAQL NSSQSNAVSH VLQRPLSLIQ GPPGTGKTVT SATIVYHLSK  60
   61 IHKDRILVCA PSNVAVDHLA AKLRDLGLKV VRLTAKSRED VESSVSNLAL HNLVGRGAKG 120
  121 ELKNLLKLKD EVGELSASDT KRFVKLVRKT EAEILNKADV VCCTCVGAGD KRLDTKFRTV 180
  181 LIDESTQASE PECLIPIVKG AKQVILVGDH QQLGPVILER KAADAGLKQS LFERLISLGH 240
  241 VPIRLEVQY

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 89.0
Match: 1pjr__
Description: DEXX box DNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [639-971]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RMNPYLSEFP SNMFYEGSLQ NGVTIEQRTV PNSKFPWPIR GIPMMFWANY GREEISANGT  60
   61 SFLNRIEAMN CERIITKLFR DGVKPEQIGV ITPYEGQRAY ILQYMQMNGS LDKDLYIKVE 120
  121 VASVDAFQGR EKDYIILSCV RANEQQAIGF LRDPRRLNVG LTRAKYGLVI LGNPRSLARN 180
  181 TLWNHLLIHF REKGCLVEGT LDNLQLCTVQ LVRPQPRKTE RPMNAQFNVE SEMGDFPKFQ 240
  241 DFDAQSMVSF SGQIGDFGNA FVDNTELSSY INNEYWNFEN FKSAFSQKQN RNEIDDRNLY 300
  301 QEEASHLNSN FARELQREEQ KHELSKDFSN LGI

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 89.0
Match: 1pjr__
Description: DEXX box DNA helicase
Matching Structure (courtesy of the PDB):

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