YRC Public Data Repository - Protein Structure Prediction

Protein:	REX4
Organism:	Saccharomyces cerevisiae
Length:	289 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 REX4.

Description	E-value	Query Range	Subject Range
DPO3_BACHD - DNA polymerase III polC-type OS=Bacillus halodurans GN=polC PE=3 SV=1 DPO3_BACHD - DNA polymerase III PolC-type OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / J...	242.0	[0..1]	[289..310]
DPO3_LISMO - DNA polymerase III polC-type OS=Listeria monocytogenes GN=polC PE=3 SV=1 DPO3_LISMO - DNA polymerase III PolC-type OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) GN...	238.0	[0..1]	[289..321]
gi\|47017682, gi\|... - gi\|47093944\|ref\|ZP_00231681.1\| DNA polymerase III, alpha chain, Gram-positive type [Listeria monocyt... gi\|254879607 - gi\|254879607\|ref\|ZP_05252317.1\| DNA polymerase III PolC [Listeria monocytogenes FSL J2-071] gi\|254824621 - gi\|254824621\|ref\|ZP_05229622.1\| DNA polymerase III PolC [Listeria monocytogenes FSL J1-194] DPO3_LISMF - DNA polymerase III PolC-type OS=Listeria monocytogenes serotype 4b (strain F2365) GN=polC PE=3 SV=1 gi\|153166695, gi... - gi\|153166695\|ref\|ZP_01927218.1\| DNA polymerase III, alpha subunit, Gram-positive type [Listeria mono...	238.0	[0..1]	[289..321]
DPO3_LISIN - DNA polymerase III polC-type OS=Listeria innocua GN=polC PE=3 SV=1 DPO3_LISIN - DNA polymerase III PolC-type OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=polC PE=3 SV=1	237.0	[0..1]	[289..321]
DPO3_BACSU - DNA polymerase III polC-type OS=Bacillus subtilis GN=polC PE=1 SV=2 gi\|221318783 - gi\|221318783\|ref\|ZP_03600077.1\| DNA polymerase III PolC [Bacillus subtilis subsp. subtilis str. JH64... gi\|221313860 - gi\|221313860\|ref\|ZP_03595665.1\| DNA polymerase III PolC [Bacillus subtilis subsp. subtilis str. NCIB... gi\|221323055 - gi\|221323055\|ref\|ZP_03604349.1\| DNA polymerase III PolC [Bacillus subtilis subsp. subtilis str. SMY] DPO3_BACSU - DNA polymerase III PolC-type OS=Bacillus subtilis (strain 168) GN=polC PE=1 SV=2	237.0	[0..1]	[288..312]
gi\|56963998, gi\|... - gi\|56963998\|ref\|YP_175729.1\| DNA polymerase III PolC [Bacillus clausii KSM-K16], gi\|56910241\|dbj\|BAD...	235.0	[0..1]	[289..309]
gi\|56419793, gi\|... - gi\|56419793\|ref\|YP_147111.1\| DNA polymerase III PolC [Geobacillus kaustophilus HTA426], gi\|56379635\|...	233.0	[0..1]	[289..320]
DPO3_STAS1 - DNA polymerase III PolC-type OS=Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305...	232.0	[0..1]	[283..315]
gi\|52348140, gi\|... - gi\|52785638\|ref\|YP_091467.1\| DNA polymerase III PolC [Bacillus licheniformis ATCC 14580], gi\|5234814...	232.0	[0..1]	[289..313]
gi\|90583510, gi\|... - gi\|90583510\|ref\|ZP_01239266.1\| DNA polymerase III, epsilon subunit:DNA polymerase III, alpha subunit... gi\|90586568, gi\|... - gi\|90586568\|ref\|ZP_01242262.1\| DNA polymerase III, epsilon subunit:DNA polymerase III, alpha subunit... DPO3_STAAM - DNA polymerase III PolC-type OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) GN=polC PE=3 SV=1 gi\|255006051 - gi\|255006051\|ref\|ZP_05144652.2\| DNA polymerase III PolC [Staphylococcus aureus subsp. aureus Mu50-om... gi\|253315620 - gi\|253315620\|ref\|ZP_04838833.1\| DNA polymerase III PolC [Staphylococcus aureus subsp. aureus str. CF... gi\|25312569 - pir\|\|C89900 DNA polymerase III, alpha chain PolC-type [imported] - Staphylococcus aureus (strain N31... DPO3_STAAN - DNA polymerase III PolC-type OS=Staphylococcus aureus (strain N315) GN=polC PE=1 SV=1 DPO3_STAA1 - DNA polymerase III PolC-type OS=Staphylococcus aureus (strain Mu3 / ATCC 700698) GN=polC PE=3 SV=1	232.0	[0..1]	[283..315]

Back

Predicted Domain #1

Region A:
Residues: [1-108]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MALSSNWQAL LASESNPTSN GKNKQSNRKI RNVKKVSKTV NVSSTTQYAP RKRKNGSKIM  60
   61 DMVYNMNKEI SKHEKDKLEG KVFEFNPNKA NTSTTIKEPV KVGISEDT

[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: [109-289]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RINSNKSKEI GKYIAMDCEF VGVGPEGKES ALARISIVNY FGHVVLDEFV KPREKVVEWR  60
   61 TWVSGIKPEH MKNAITFKEA QKKTADILEG RILVGHALKH DLEALMLSHP KSLLRDTSRH 120
  121 LPFRKLYAKG KTPSLKKLTR EVLKISIQEG EHSSVEDARA TMLLYKKEKT EFEKIHRNTF 180
  181 N

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.522879
Match:	1fxxA
Description:	Exonuclease I
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