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

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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 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]

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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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.639	a.7.7	BAG domain
View	Download	0.545	a.7.7	BAG domain
View	Download	0.446	a.40.1	Calponin-homology domain, CH-domain
View	Download	0.313	d.129.1	TATA-box binding protein-like
View	Download	0.307	a.24.3	Cytochromes
View	Download	0.291	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.291	a.45.1	Glutathione S-transferase (GST), C-terminal 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