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View Structure Prediction Details

Protein: RAD16
Organism: Saccharomyces cerevisiae
Length: 790 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 RAD16.

Description E-value Query
Range
Subject
Range
RAD16 - Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleot...
RAD16_YEAST - DNA repair protein RAD16 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD16 PE=1 SV=1
0.0 [1..790] [1..790]
rhp16 - Rad16 homolog Rhp16
gi|19075201 - gi|19075201|ref|NP_587701.1| hypothetical protein SPCC613.13c [Schizosaccharomyces pombe 972h-]
0.0 [42..790] [209..963]
RHP16_SCHPO - ATP-dependent helicase rhp16 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rhp16 PE=3 SV...
gi|14195095 - gi|14195095|sp|P79051.2|RHP16_SCHPO RecName: Full=ATP-dependent helicase rhp16; AltName: Full=DNA re...
0.0 [42..790] [107..861]
gi|16944468, gi|... - gi|32404678|ref|XP_322952.1| hypothetical protein ( (AL451013) probable nucleotide exsicion repair p...
gi|85102654 - gi|85102654|ref|XP_961377.1| DNA repair protein RAD16 [Neurospora crassa OR74A]
0.0 [32..788] [341..1076]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
0.0 [8..788] [416..1130]
gi|123997421, gi... - gi|123997421|gb|ABM86312.1| RAD54-like 2 (S. cerevisiae) [synthetic construct], gi|123982750|gb|ABM8...
gi|24307995, gi|... - gi|24307995|ref|NP_055921.1| RAD54-like 2 [Homo sapiens], gi|18999468|gb|AAH24298.1| RAD54-like 2 (S...
0.0 [20..788] [4..799]
ARIP4_MOUSE - Helicase ARIP4 OS=Mus musculus GN=Rad54l2 PE=1 SV=1
0.0 [4..788] [94..906]

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Predicted Domain #1
Region A:
Residues: [1-82]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQEGGFIRRR RTRSTKKSVN YNELSDDDTA VKNSKTLQLK GNSENVNDSQ DEEYRDDATL  60
   61 VKSPDDDDKD FIIDLTGSDK ER

[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: [83-133]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TATDENTHAI KNDNDEIIEI KEERDVSDDD EPLTKKRKTT ARKKKKKTST K

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 2.39794
Match: 1gm5A_
Description: RecG, N-terminal domain; RecG "wedge" domain; RecG helicase domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
ubiquitin-protein ligase activity 5.98960927712678 bayes_pls_golite062009
small conjugating protein ligase activity 5.74178173377247 bayes_pls_golite062009
acid-amino acid ligase activity 5.13930231819025 bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds 5.02047466767105 bayes_pls_golite062009
deoxyribonuclease activity 2.72222787956584 bayes_pls_golite062009
endodeoxyribonuclease activity 2.60873257753475 bayes_pls_golite062009
hydrolase activity 2.55157966585974 bayes_pls_golite062009
binding 2.4974940028864 bayes_pls_golite062009
nucleoside-triphosphatase activity 2.16381244011837 bayes_pls_golite062009
pyrophosphatase activity 2.13284212711072 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides 2.11265775498161 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 2.11046854230259 bayes_pls_golite062009
endonuclease activity 1.96689197136388 bayes_pls_golite062009
helicase activity 1.70242731830224 bayes_pls_golite062009
ATPase activity 1.53315090215319 bayes_pls_golite062009
ligase activity 1.31241138156276 bayes_pls_golite062009
purine ribonucleotide binding 1.2935968641033 bayes_pls_golite062009
ribonucleotide binding 1.2935353851804 bayes_pls_golite062009
purine nucleotide binding 1.29138695385133 bayes_pls_golite062009
nucleotide binding 1.28669586915546 bayes_pls_golite062009
structure-specific DNA binding 1.2539059700735 bayes_pls_golite062009
DNA-dependent ATPase activity 1.2155186842031 bayes_pls_golite062009
purine NTP-dependent helicase activity 1.19311444180077 bayes_pls_golite062009
ATP-dependent helicase activity 1.19311444180077 bayes_pls_golite062009
double-stranded DNA binding 1.117585097627 bayes_pls_golite062009
nucleic acid binding 1.08697924060619 bayes_pls_golite062009
catalytic activity 1.00104173493322 bayes_pls_golite062009
ATP binding 0.98146619596929 bayes_pls_golite062009
adenyl ribonucleotide binding 0.949788783884952 bayes_pls_golite062009
adenyl nucleotide binding 0.931486373329219 bayes_pls_golite062009
DNA helicase activity 0.72881469450553 bayes_pls_golite062009
DNA binding 0.702147676354075 bayes_pls_golite062009
motor activity 0.677658554107 bayes_pls_golite062009
ATP-dependent DNA helicase activity 0.5886142102548 bayes_pls_golite062009
single-stranded DNA binding 0.568457189190858 bayes_pls_golite062009
protein binding 0.378225828131122 bayes_pls_golite062009
mismatched DNA binding 0.31144582840038 bayes_pls_golite062009
transcription regulator activity 0.287777990975748 bayes_pls_golite062009
DNA strand annealing activity 0.283577486331079 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 0.176241137083092 bayes_pls_golite062009
microtubule motor activity 0.11674780318211 bayes_pls_golite062009
kinase activity 0.0980017568205789 bayes_pls_golite062009
protein kinase activity 0.0364322017534667 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [134-368]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKSPKVTPYE RNTLRLYEHH PELRNVFTDL KNAPPYVPQR SKQPDGMTIK LLPFQLEGLH  60
   61 WLISQEESIY AGGVLADEMG MGKTIQTIAL LMNDLTKSPS LVVAPTVALM QWKNEIEQHT 120
  121 KGQLKIYIYH GASRTTDIKD LQGYDVVLTT YAVLESVFRK QNYGFRRKNG LFKQPSVLHN 180
  181 IDFYRVILDE AHNIKDRQSN TARAVNNLKT QKRWCLSGTP LQNRIGEMYS LIRFL

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 2.39794
Match: 1gm5A_
Description: RecG, N-terminal domain; RecG "wedge" domain; RecG helicase domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [369-528]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NINPFTKYFC TKCDCASKDW KFTDRMHCDH CSHVIMQHTN FFNHFMLKNI QKFGVEGPGL  60
   61 ESFNNIQTLL KNIMLRRTKV ERADDLGLPP RIVTVRRDFF NEEEKDLYRS LYTDSKRKYN 120
  121 SFVEEGVVLN NYANIFTLIT RMRQLADHPD LVLKRLNNFP 

[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
ubiquitin-protein ligase activity 5.98960927712678 bayes_pls_golite062009
small conjugating protein ligase activity 5.74178173377247 bayes_pls_golite062009
acid-amino acid ligase activity 5.13930231819025 bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds 5.02047466767105 bayes_pls_golite062009
deoxyribonuclease activity 2.72222787956584 bayes_pls_golite062009
endodeoxyribonuclease activity 2.60873257753475 bayes_pls_golite062009
hydrolase activity 2.55157966585974 bayes_pls_golite062009
binding 2.4974940028864 bayes_pls_golite062009
nucleoside-triphosphatase activity 2.16381244011837 bayes_pls_golite062009
pyrophosphatase activity 2.13284212711072 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides 2.11265775498161 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 2.11046854230259 bayes_pls_golite062009
endonuclease activity 1.96689197136388 bayes_pls_golite062009
helicase activity 1.70242731830224 bayes_pls_golite062009
ATPase activity 1.53315090215319 bayes_pls_golite062009
ligase activity 1.31241138156276 bayes_pls_golite062009
purine ribonucleotide binding 1.2935968641033 bayes_pls_golite062009
ribonucleotide binding 1.2935353851804 bayes_pls_golite062009
purine nucleotide binding 1.29138695385133 bayes_pls_golite062009
nucleotide binding 1.28669586915546 bayes_pls_golite062009
structure-specific DNA binding 1.2539059700735 bayes_pls_golite062009
DNA-dependent ATPase activity 1.2155186842031 bayes_pls_golite062009
purine NTP-dependent helicase activity 1.19311444180077 bayes_pls_golite062009
ATP-dependent helicase activity 1.19311444180077 bayes_pls_golite062009
double-stranded DNA binding 1.117585097627 bayes_pls_golite062009
nucleic acid binding 1.08697924060619 bayes_pls_golite062009
catalytic activity 1.00104173493322 bayes_pls_golite062009
ATP binding 0.98146619596929 bayes_pls_golite062009
adenyl ribonucleotide binding 0.949788783884952 bayes_pls_golite062009
adenyl nucleotide binding 0.931486373329219 bayes_pls_golite062009
DNA helicase activity 0.72881469450553 bayes_pls_golite062009
DNA binding 0.702147676354075 bayes_pls_golite062009
motor activity 0.677658554107 bayes_pls_golite062009
ATP-dependent DNA helicase activity 0.5886142102548 bayes_pls_golite062009
single-stranded DNA binding 0.568457189190858 bayes_pls_golite062009
protein binding 0.378225828131122 bayes_pls_golite062009
mismatched DNA binding 0.31144582840038 bayes_pls_golite062009
transcription regulator activity 0.287777990975748 bayes_pls_golite062009
DNA strand annealing activity 0.283577486331079 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 0.176241137083092 bayes_pls_golite062009
microtubule motor activity 0.11674780318211 bayes_pls_golite062009
kinase activity 0.0980017568205789 bayes_pls_golite062009
protein kinase activity 0.0364322017534667 bayes_pls_golite062009

Predicted Domain #5
Region A:
Residues: [529-790]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDDIGVVICQ LCNDEAEEPI ESKCHHKFCR LCIKEYVESF MENNNKLTCP VCHIGLSIDL  60
   61 SQPALEVDLD SFKKQSIVSR LNMSGKWQSS TKIEALVEEL YKLRSNKRTI KSIVFSQFTS 120
  121 MLDLVEWRLK RAGFQTVKLQ GSMSPTQRDE TIKYFMNNIQ CEVFLVSLKA GGVALNLCEA 180
  181 SQVFILDPWW NPSVEWQSGD RVHRIGQYRP VKITRFCIED SIEARIIELQ EKKANMIHAT 240
  241 INQDEAAISR LTPADLQFLF NN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 13.522879
Match: 1hv8A_
Description: Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

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