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View Structure Prediction Details

Protein: RFA1
Organism: Saccharomyces cerevisiae
Length: 621 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 RFA1.

Description E-value Query
Range		 Subject
Range
RPA1 - replication protein A1, 70kDa
 0.0 [2..620] [1..615]
gi|151941394 - gi|151941394|gb|EDN59765.1| RF-A [Saccharomyces cerevisiae YJM789]
RFA1 - Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded D...
RFA1_YEAST - Replication factor A protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFA1 PE=1...
 0.0 [1..621] [1..621]
RFA1_MOUSE - Replication protein A 70 kDa DNA-binding subunit OS=Mus musculus GN=Rpa1 PE=1 SV=1
 0.0 [2..617] [1..621]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
 0.0 [1..617] [1..602]
gi|28922877, gi|... - gi|32404590|ref|XP_322908.1| hypothetical protein [Neurospora crassa], gi|28922877|gb|EAA32097.1| re...
gi|85102469 - gi|85102469|ref|XP_961333.1| replication factor-A protein 1 [Neurospora crassa OR74A]
 0.0 [2..615] [1..602]
RFA1_XENLA - Replication protein A 70 kDa DNA-binding subunit OS=Xenopus laevis GN=rpa1 PE=1 SV=1
 0.0 [1..617] [1..603]
RFA1A_ARATH - Replication protein A 70 kDa DNA-binding subunit A OS=Arabidopsis thaliana GN=RPA1A PE=1 SV=1
 0.0 [2..615] [1..638]
gi|13536993 - gi|13536993|dbj|BAB40712.1| replication protein A 70kDa [Oryza sativa Japonica Group]
 0.0 [4..619] [2..651]
ssb1 - DNA replication factor A subunit Ssb1
RFA1_SCHPO - Replication factor A protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssb1 PE=1 S...
 0.0 [2..618] [1..608]

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Predicted Domain #1
Region A:
Residues: [1-116] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSVQLSRGD FHSIFTNKQR YDNPTGGVYQ VYNTRKSDGA NSNRKNLIMI SDGIYHMKAL  60
   61 LRNQAASKFQ SMELQRGDII RVIIAEPAIV RERKKYVLLV DDFELVQSRA DMVNQT

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 32.39794
Match: 1ewiA_
Description: Replication protein A 70 KDa subunit (RPA70)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
telomeric DNA binding 7.07761964836826 bayes_pls_golite062009
single-stranded telomeric DNA binding 6.04637014849887 bayes_pls_golite062009
telomerase inhibitor activity 5.40477712257453 bayes_pls_golite062009
nucleic acid binding 4.02967008021862 bayes_pls_golite062009
DNA binding 3.62735703519187 bayes_pls_golite062009
single-stranded DNA binding 3.59212997362902 bayes_pls_golite062009
structure-specific DNA binding 3.53214384646348 bayes_pls_golite062009
binding 2.83465364476231 bayes_pls_golite062009
structural constituent of ribosome 2.25006883439646 bayes_pls_golite062009
transcription regulator activity 2.20239961025491 bayes_pls_golite062009
structural molecule activity 2.07809455998137 bayes_pls_golite062009
protein binding 1.20309946451799 bayes_pls_golite062009
ribonuclease activity 1.19236946227657 bayes_pls_golite062009
DNA helicase activity 1.12203697857261 bayes_pls_golite062009
transcription factor activity 1.05816813143865 bayes_pls_golite062009
sequence-specific DNA binding 0.86170694706755 bayes_pls_golite062009
DNA-directed RNA polymerase activity 0.79554655100991 bayes_pls_golite062009
RNA polymerase activity 0.79554655100991 bayes_pls_golite062009
hydrolase activity 0.724860465280978 bayes_pls_golite062009
DNA-dependent ATPase activity 0.638831894247026 bayes_pls_golite062009
nuclease activity 0.57381531077345 bayes_pls_golite062009
DEAD/H-box RNA helicase binding 0.440977654731901 bayes_pls_golite062009
translation regulator activity 0.41164963411369 bayes_pls_golite062009
double-stranded DNA binding 0.378383789953688 bayes_pls_golite062009
translation factor activity, nucleic acid binding 0.360862776629591 bayes_pls_golite062009
nucleotidyltransferase activity 0.325774164899685 bayes_pls_golite062009
four-way junction helicase activity 0.31769813397725 bayes_pls_golite062009
RNA binding 0.31028563542112 bayes_pls_golite062009
translation initiation factor activity 0.30211828233765 bayes_pls_golite062009
exonuclease activity 0.28313884527829 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 0.226916777208049 bayes_pls_golite062009
hydrolase activity, acting on ester bonds 0.223941674251642 bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters 0.125256208482441 bayes_pls_golite062009
exoribonuclease activity 0.109774918833391 bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters 0.0954216620147701 bayes_pls_golite062009
ATP-dependent DNA helicase activity 0.0179535526984695 bayes_pls_golite062009
helicase activity 0.0121541775159524 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [117-176] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 STFLDNYFSE HPNETLKDED ITDSGNVANQ TNASNAGVPD MLHSNSNLNA NERKFANENP  60
   61

[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 functions:

Term Confidence Notes
telomeric DNA binding 7.07761964836826 bayes_pls_golite062009
single-stranded telomeric DNA binding 6.04637014849887 bayes_pls_golite062009
telomerase inhibitor activity 5.40477712257453 bayes_pls_golite062009
nucleic acid binding 4.02967008021862 bayes_pls_golite062009
DNA binding 3.62735703519187 bayes_pls_golite062009
single-stranded DNA binding 3.59212997362902 bayes_pls_golite062009
structure-specific DNA binding 3.53214384646348 bayes_pls_golite062009
binding 2.83465364476231 bayes_pls_golite062009
structural constituent of ribosome 2.25006883439646 bayes_pls_golite062009
transcription regulator activity 2.20239961025491 bayes_pls_golite062009
structural molecule activity 2.07809455998137 bayes_pls_golite062009
protein binding 1.20309946451799 bayes_pls_golite062009
ribonuclease activity 1.19236946227657 bayes_pls_golite062009
DNA helicase activity 1.12203697857261 bayes_pls_golite062009
transcription factor activity 1.05816813143865 bayes_pls_golite062009
sequence-specific DNA binding 0.86170694706755 bayes_pls_golite062009
DNA-directed RNA polymerase activity 0.79554655100991 bayes_pls_golite062009
RNA polymerase activity 0.79554655100991 bayes_pls_golite062009
hydrolase activity 0.724860465280978 bayes_pls_golite062009
DNA-dependent ATPase activity 0.638831894247026 bayes_pls_golite062009
nuclease activity 0.57381531077345 bayes_pls_golite062009
DEAD/H-box RNA helicase binding 0.440977654731901 bayes_pls_golite062009
translation regulator activity 0.41164963411369 bayes_pls_golite062009
double-stranded DNA binding 0.378383789953688 bayes_pls_golite062009
translation factor activity, nucleic acid binding 0.360862776629591 bayes_pls_golite062009
nucleotidyltransferase activity 0.325774164899685 bayes_pls_golite062009
four-way junction helicase activity 0.31769813397725 bayes_pls_golite062009
RNA binding 0.31028563542112 bayes_pls_golite062009
translation initiation factor activity 0.30211828233765 bayes_pls_golite062009
exonuclease activity 0.28313884527829 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 0.226916777208049 bayes_pls_golite062009
hydrolase activity, acting on ester bonds 0.223941674251642 bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters 0.125256208482441 bayes_pls_golite062009
exoribonuclease activity 0.109774918833391 bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters 0.0954216620147701 bayes_pls_golite062009
ATP-dependent DNA helicase activity 0.0179535526984695 bayes_pls_golite062009
helicase activity 0.0121541775159524 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [177-299] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NSQKTRPIFA IEQLSPYQNV WTIKARVSYK GEIKTWHNQR GDGKLFNVNF LDTSGEIRAT  60
   61 AFNDFATKFN EILQEGKVYY VSKAKLQPAK PQFTNLTHPY ELNLDRDTVI EECFDESNVP 120
  121 KTH

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 604.927757
Match: 1fguA_
Description: Replication protein A 70 KDa subunit (RPA70)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
telomeric DNA binding 7.07761964836826 bayes_pls_golite062009
single-stranded telomeric DNA binding 6.04637014849887 bayes_pls_golite062009
telomerase inhibitor activity 5.40477712257453 bayes_pls_golite062009
nucleic acid binding 4.02967008021862 bayes_pls_golite062009
DNA binding 3.62735703519187 bayes_pls_golite062009
single-stranded DNA binding 3.59212997362902 bayes_pls_golite062009
structure-specific DNA binding 3.53214384646348 bayes_pls_golite062009
binding 2.83465364476231 bayes_pls_golite062009
structural constituent of ribosome 2.25006883439646 bayes_pls_golite062009
transcription regulator activity 2.20239961025491 bayes_pls_golite062009
structural molecule activity 2.07809455998137 bayes_pls_golite062009
protein binding 1.20309946451799 bayes_pls_golite062009
ribonuclease activity 1.19236946227657 bayes_pls_golite062009
DNA helicase activity 1.12203697857261 bayes_pls_golite062009
transcription factor activity 1.05816813143865 bayes_pls_golite062009
sequence-specific DNA binding 0.86170694706755 bayes_pls_golite062009
DNA-directed RNA polymerase activity 0.79554655100991 bayes_pls_golite062009
RNA polymerase activity 0.79554655100991 bayes_pls_golite062009
hydrolase activity 0.724860465280978 bayes_pls_golite062009
DNA-dependent ATPase activity 0.638831894247026 bayes_pls_golite062009
nuclease activity 0.57381531077345 bayes_pls_golite062009
DEAD/H-box RNA helicase binding 0.440977654731901 bayes_pls_golite062009
translation regulator activity 0.41164963411369 bayes_pls_golite062009
double-stranded DNA binding 0.378383789953688 bayes_pls_golite062009
translation factor activity, nucleic acid binding 0.360862776629591 bayes_pls_golite062009
nucleotidyltransferase activity 0.325774164899685 bayes_pls_golite062009
four-way junction helicase activity 0.31769813397725 bayes_pls_golite062009
RNA binding 0.31028563542112 bayes_pls_golite062009
translation initiation factor activity 0.30211828233765 bayes_pls_golite062009
exonuclease activity 0.28313884527829 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 0.226916777208049 bayes_pls_golite062009
hydrolase activity, acting on ester bonds 0.223941674251642 bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters 0.125256208482441 bayes_pls_golite062009
exoribonuclease activity 0.109774918833391 bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters 0.0954216620147701 bayes_pls_golite062009
ATP-dependent DNA helicase activity 0.0179535526984695 bayes_pls_golite062009
helicase activity 0.0121541775159524 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [300-440] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FNFIKLDAIQ NQEVNSNVDV LGIIQTINPH FELTSRAGKK FDRRDITIVD DSGFSISVGL  60
   61 WNQQALDFNL PEGSVAAIKG VRVTDFGGKS LSMGFSSTLI PNPEIPEAYA LKGWYDSKGR 120
  121 NANFITLKQE PGMGGQSAAS L

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 604.927757
Match: 1fguA_
Description: Replication protein A 70 KDa subunit (RPA70)
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [441-621] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TKFIAQRITI ARAQAENLGR SEKGDFFSVK AAISFLKVDN FAYPACSNEN CNKKVLEQPD  60
   61 GTWRCEKCDT NNARPNWRYI LTISIIDETN QLWLTLFDDQ AKQLLGVDAN TLMSLKEEDP 120
  121 NEFTKITQSI QMNEYDFRIR AREDTYNDQS RIRYTVANLH SLNYRAEADY LADELSKALL 180
  181 A

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 355.39794
Match: 1l1oC_
Description: Replication protein A 70 KDa subunit (RPA70)
Matching Structure (courtesy of the PDB):
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle