YRC Public Data Repository - Protein Structure Prediction

Protein:	RAD57
Organism:	Saccharomyces cerevisiae
Length:	460 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 RAD57.

Description	E-value	Query Range	Subject Range
RAD57 - Protein that stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA;... RAD57_YEAST - DNA repair protein RAD57 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD57 PE=1 SV=1	0.0	[1..460]	[1..460]
RA51A_XENLA - DNA repair protein RAD51 homolog A OS=Xenopus laevis GN=rad51-a PE=2 SV=1	6.0E-88	[1..345]	[1..336]
RAD51_CRIGR - DNA repair protein RAD51 homolog 1 OS=Cricetulus griseus GN=RAD51 PE=2 SV=1	6.0E-88	[1..345]	[3..339]
RAD51_MOUSE - DNA repair protein RAD51 homolog 1 OS=Mus musculus GN=Rad51 PE=1 SV=1	1.0E-87	[1..345]	[3..339]
RAD51_RABIT - DNA repair protein RAD51 homolog 1 OS=Oryctolagus cuniculus GN=RAD51 PE=2 SV=1	5.0E-87	[1..345]	[3..339]
RAD51_CHICK - DNA repair protein RAD51 homolog 1 OS=Gallus gallus GN=RAD51A PE=2 SV=1	5.0E-87	[3..345]	[1..339]
gi\|255005319 - gi\|255005319\|ref\|ZP_05143920.2\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus Mu50-om... gi\|82655764, gi\|... - gi\|82750233\|ref\|YP_415974.1\| DNA repair protein RadA [Staphylococcus aureus RF122], gi\|82655764\|emb\|... gi\|90584120, gi\|... - gi\|90584120\|ref\|ZP_01239864.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus JH1], gi... gi\|253315635 - gi\|253315635\|ref\|ZP_04838848.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus str. CF... gi\|90586985, gi\|... - gi\|90586985\|ref\|ZP_01242667.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus JH9], gi... gi\|269202148\|ref... - DNA repair protein RadA [Staphylococcus aureus subsp. aureus ED98] gi\|13700416, gi\|... - gi\|15926203\|ref\|NP_373736.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus N315], gi\|... gi\|49243833, gi\|... - gi\|49485390\|ref\|YP_042611.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus MSSA476], ... gi\|15923516, gi\|... - gi\|15923516\|ref\|NP_371050.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus Mu50], gi\|... gi\|25301654 - pir\|\|G89819 hypothetical protein radA [imported] - Staphylococcus aureus (strain N315) gi\|21282210, gi\|... - gi\|21282210\|ref\|NP_645298.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus MW2], gi\|2... gi\|156978854, gi... - gi\|156978854\|ref\|YP_001441113.1\| DNA repair protein RadA [Staphylococcus aureus subsp. aureus Mu3], ...	7.0E-87	[39..437]	[4..361]
gi\|4996226 - gi\|4996226\|dbj\|BAA78377.1\| Rad51 [Cynops pyrrhogaster]	1.0E-86	[3..345]	[1..337]
RADA_LISIN - DNA repair protein RadA homolog OS=Listeria innocua GN=radA PE=3 SV=1 RADA_LISIN - DNA repair protein RadA OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=radA PE=3 SV=1	3.0E-86	[34..437]	[1..364]

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Predicted Domain #1

Region A:
Residues: [1-61]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPRALSIKFD NTYMDLYDEL PESKLLYDEE FSYLLDAVRQ NGVCVVDFLT LTPKELARLI  60
   61 Q

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.522879
Match:	1b22A_
Description:	DNA repair protein Rad51, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [62-359]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RSINEVFRFQ QLLVHEYNEK YLEICEKNSI SPDNGPECFT TADVAMDELL GGGIFTHGIT  60
   61 EIFGESSTGK SQLLMQLALS VQLSEPAGGL GGKCVYITTE GDLPTQRLES MLSSRPAYEK 120
  121 LGITQSNIFT VSCNDLINQE HIINVQLPIL LERSKGSIKL VIIDSISHHL RVELQNKSFR 180
  181 ESQENKNYLD RMAEKLQILA HDYSLSVVVA NQVGDKPLAN SPVAHRTYVT DYDYQLGWLV 240
  241 GWKNSTILYR QMNSLLGASS NNDEILSDDE DYMLIERVMS TVNDRNYDFF SKKKPPII

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	102.67837
Match:	1rea__
Description:	RecA protein, ATPase-domain; RecA protein, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA-dependent ATPase activity	2.72462789867829	bayes_pls_golite062009
binding	2.44689197844883	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
DNA helicase activity	2.10134737488849	bayes_pls_golite062009
telomeric DNA binding	1.7692956079774	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.71882026185027	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
hydrolase activity	1.65763522573119	bayes_pls_golite062009
microtubule motor activity	1.6537049553461	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.56989255954747	bayes_pls_golite062009
ATPase activity	1.53315090215319	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
motor activity	1.14667913749579	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
nucleic acid binding	1.08697924060619	bayes_pls_golite062009
protein-DNA loading ATPase activity	1.08464552192299	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA clamp loader activity	0.91282941965371	bayes_pls_golite062009
double-strand/single-strand DNA junction binding	0.88025547382722	bayes_pls_golite062009
DNA binding	0.702147676354075	bayes_pls_golite062009
single-stranded telomeric DNA binding	0.701765069055282	bayes_pls_golite062009
double-stranded telomeric DNA binding	0.60383579317561	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
cytoskeletal protein binding	0.500462538667228	bayes_pls_golite062009
recombinase activity	0.45851158693664	bayes_pls_golite062009
RNA helicase activity	0.34746349346164	bayes_pls_golite062009
centromeric DNA binding	0.322818640526369	bayes_pls_golite062009
mismatched DNA binding	0.31144582840038	bayes_pls_golite062009
ATP-dependent RNA helicase activity	0.30832907234141	bayes_pls_golite062009
RNA-dependent ATPase activity	0.29532978396745	bayes_pls_golite062009
transcription regulator activity	0.287777990975748	bayes_pls_golite062009
four-way junction helicase activity	0.26252931460003	bayes_pls_golite062009
exodeoxyribonuclease V activity	0.185603938981231	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
protein binding	0.071010918255742	bayes_pls_golite062009
actin binding	0.00482938540552702	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [360-460]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENKTVERNSS SPISRQSKKR KFDYRVPNLG LTWSNHVSTR ILLQKSFKAS TIIQRGEAHL  60
   61 YKGGDSASFW QVKRTMKVVY STFAKPGQIA YQITKRGIET A

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	102.67837
Match:	1rea__
Description:	RecA protein, ATPase-domain; RecA protein, C-terminal domain
Matching Structure (courtesy of the PDB):

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

Predicted functions: