YRC Public Data Repository - Protein Structure Prediction

Protein:	DPO3_LISMO
Organism:	Listeria monocytogenes
Length:	1444 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 DPO3_LISMO.

Description	E-value	Query Range	Subject Range
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...	1359.0	[0..1]	[1444..1]
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	1359.0	[0..1]	[1444..1]
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	1335.0	[0..3]	[1444..2]
gi\|143342 - gi\|143342\|gb\|AAA22666.1\| polymerase III	1329.0	[0..3]	[1444..2]
gi\|228660107, gi... - gi\|229123331\|ref\|ZP_04252535.1\| DNA polymerase III polC-type [Bacillus cereus 95/8201], gi\|228660107... gi\|21401801, gi\|... - gi\|65321145\|ref\|ZP_00394104.1\| COG2176: DNA polymerase III, alpha subunit (gram-positive type) [Baci... gi\|228947537, gi... - gi\|228947537\|ref\|ZP_04109827.1\| DNA polymerase III polC-type [Bacillus thuringiensis serovar monterr... gi\|227813274, gi... - gi\|227813274\|ref\|YP_002813283.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus ant... gi\|165872624, gi... - gi\|165872624\|ref\|ZP_02217255.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|170687849, gi... - gi\|170687849\|ref\|ZP_02879063.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|170128318, gi... - gi\|170706900\|ref\|ZP_02897358.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|49180595, gi\|... - gi\|49186668\|ref\|YP_029920.1\| DNA polymerase III PolC [Bacillus anthracis str. Sterne], gi\|49180595\|g... gi\|52141670, gi\|... - gi\|52141670\|ref\|YP_085159.1\| DNA polymerase III PolC [Bacillus cereus E33L], gi\|51975139\|gb\|AAU16689... gi\|30258465, gi\|... - gi\|30263821\|ref\|NP_846198.1\| DNA polymerase III PolC [Bacillus anthracis str. Ames], gi\|30258465\|gb\|... gi\|47504393, gi\|... - gi\|47529245\|ref\|YP_020594.1\| DNA polymerase III PolC [Bacillus anthracis str. 'Ames Ancestor'], gi\|4... gi\|190568456, gi... - gi\|190568456\|ref\|ZP_03021363.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|196042171, gi... - gi\|196042171\|ref\|ZP_03109454.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cere... gi\|218904946, gi... - gi\|218904946\|ref\|YP_002452780.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cer... gi\|254759330 - gi\|254759330\|ref\|ZP_05211355.1\| DNA polymerase III PolC [Bacillus anthracis str. Australia 94] gi\|254756009 - gi\|254756009\|ref\|ZP_05208040.1\| DNA polymerase III PolC [Bacillus anthracis str. Vollum] gi\|254721996 - gi\|254721996\|ref\|ZP_05183785.1\| DNA polymerase III PolC [Bacillus anthracis str. A1055] gi\|254683475 - gi\|254683475\|ref\|ZP_05147335.1\| DNA polymerase III PolC [Bacillus anthracis str. CNEVA-9066] gi\|229601637, gi... - gi\|229601637\|ref\|YP_002868056.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus ant...	1327.0	[0..6]	[1444..5]
gi\|49478392, gi\|... - gi\|49478392\|ref\|YP_037879.1\| DNA polymerase III PolC [Bacillus thuringiensis serovar konkukian str. ...	1326.0	[0..6]	[1444..5]
gi\|47569095, gi\|... - gi\|47569095\|ref\|ZP_00239784.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cereu...	1326.0	[0..6]	[1444..5]
DPO3_BACCR - DNA polymerase III PolC-type OS=Bacillus cereus (strain ATCC 14579 / DSM 31 / JCM 2152 / NBRC 15305 ... gi\|229146389, gi... - gi\|229146389\|ref\|ZP_04274760.1\| DNA polymerase III polC-type [Bacillus cereus BDRD-ST24], gi\|2286370...	1323.0	[0..6]	[1444..7]
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...	1321.0	[0..1]	[1444..1]
gi\|152976184, gi... - gi\|89203212\|ref\|ZP_01181903.1\| DNA polymerase III, epsilon subunit:DNA polymerase III, alpha subunit...	1318.0	[0..6]	[1444..5]

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Predicted Domain #1

Region A:
Residues: [1-336]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTAKEEEKQE RFQLLMTQIG LQDVTTYEEF TKDAKIEKLV ADKKNKTWQF HLHVPQIFPA  60
   61 ALFHMMDVGM KRAFSQIAET EMQIVPENQT INETLIQDYW NLIVEPIGKQ SPMIGKLLME 120
  121 QKPTFKEPHF IEVAVHNDME EATIQQRFQT KIIESYGKAG FPRLAMKMHM LDQSETDEYK 180
  181 AFAQAKQEED QKKAAEAVQV MQKRQAEGQS GGGGAAPLTG PFQIGYKIKD DEEVKRLGDI 240
  241 YDEERRITVQ GLIFATEIRE LRSGRSLLQF KITDYTSSMI IKMFSRDNED AAMFQNLKKG 300
  301 MWVKVRGSVQ NDTFVRDLIM MAQDVNEIAG VKRLDT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.0
Match:	1i84S
Description:	Heavy meromyosin subfragment
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [337-415]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AEEKRAELHL HSPMSQMDAT SSVDSLFKQA ADWGHKAIAI TDHSVAQSFP EAYGAGQKYG  60
   61 LKVIFGIEAN LIDDGVPIA

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.22
Match:	1m65A
Description:	Hypothetical protein YcdX
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [416-529]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YNDQHIALED ATYCVFDVET TGLSAVYDTI IELAGVKMKN GEIIDKFEAF IDPGHPLSAT  60
   61 TINLTGITDD MVKGSDPIDV VLKRFKEWSG DDILVAHNAS FDMGFINTAY EKVG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	21.221849
Match:	2p1jA
Description:	No description for 2p1jA was found.

Predicted Domain #4

Region A:
Residues: [530-1444]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LEKAENAVVD TLELARFLYP HFKNHRLNTL TKKFNIILEQ HHRAVFDAEA TAYLAWKLIK  60
   61 DAKEMHNIDF HDSLNDYMGE GDAYKRARPF HATIYAQTAV GLKNLFKLIT MSNINYFYRV 120
  121 PRIPRSQLKK LREGLIIGTA CSQGELFEAM MQKGMQAAEK VAEFYDFIEV QPKPVYAPLI 180
  181 ERELVRDEKA LEEILKNIVR VGEKTGKPVV ATGNVHYKDP VDKIYRKILI HSQGGANPLN 240
  241 RAELPDVHFR TTDEMLKEFA FLGEEKAKEI VVTNANLVVD WMENLKPIKD ELYTPKIDGA 300
  301 EDEVRNMSYA MAHQLYGEKL PEIVEARLEK ELKSIIGHGF AVIYLISHKL VKKSLVDGYL 360
  361 VGSRGSVGSS FVATMTEITE VNPLPPHYLC PNCKDSEFFD DGSVGSGFDL PDKDCPHCGT 420
  421 AYQKEGQDIP FETFLGFKGD KVPDIDLNFS GDYQPVAHAY TKEIFGEDYV FRAGTIGTVA 480
  481 EKTAFGYVRN YERDMNMTIR GAEIDRLVAG CTGVKRTTGQ HPGGIIVIPD YMDVYDFTPV 540
  541 QFPADATDSE WKTTHFDFHS IHDNVLKLDI LGHDDPTAIR MLQDLSGIDP KTIPTDDPDV 600
  601 MKLFGSTESL GVKPADIDSK TGTLGIPEFG TRFVRQMLEQ TKPTTFSELV QISGLSHGTD 660
  661 VWLGNAEELI KNKTCELPDV IGCRDDIMVF LIYQGLESSL AFKIMESVRK GKGLTDEMEE 720
  721 AMMANKVPLW YIESCKKIKY MFPKAHAAAY VLMAVRIAYF KVHYPLYFYA TYFTVRADDF 780
  781 DLTSMVNGKE AVKATMKEVN DKGMEASTKE KNLLTVLEIA NEMLARGFHF QKVDLYKSSA 840
  841 DEFIIDGESL IPPFNAIPSL GTNVAKQIVA ARENGEFLSK EDLQQRGKVS KTIIQYMDDQ 900
  901 GCLEGLPDQN QLSLF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	2hnhA
Description:	No description for 2hnhA was found.

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