YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|194472695, gi...
Organism:	Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188
Length:	804 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 gi|194472695, gi....

Description	E-value	Query Range	Subject Range
gi\|56129965, gi\|... - gi\|56415708\|ref\|YP_152783.1\| DNA gyrase subunit B [Salmonella enterica subsp. enterica serovar Parat... gi\|197364636, gi... - gi\|197364636\|ref\|YP_002144273.1\| DNA gyrase subunit B [Salmonella enterica subsp. enterica serovar P...	0.0	[1..804]	[1..804]
gi\|1546916 - gi\|1546916\|emb\|CAA69221.1\| subunit B of DNA gyrase [Salmonella typhimurium] gi\|1546916\|emb\|C... - subunit B of DNA gyrase [Salmonella typhimurium]	0.0	[1..804]	[1..804]
gi\|62129956, gi\|... - gi\|62182323\|ref\|YP_218740.1\| DNA gyrase subunit B [Salmonella enterica subsp. enterica serovar Chole...	0.0	[1..804]	[1..804]
gi\|218367543, gi... - gi\|218560774\|ref\|YP_002393687.1\| DNA gyrase subunit B [Escherichia coli S88], gi\|218367543\|emb\|CAR05... gi\|218429551, gi... - gi\|218691987\|ref\|YP_002400199.1\| DNA gyrase subunit B [Escherichia coli ED1a], gi\|218429551\|emb\|CAR1... gi\|110644042, gi... - gi\|110644042\|ref\|YP_671772.1\| DNA gyrase subunit B [Escherichia coli 536], gi\|110345634\|gb\|ABG71871.... gi\|227883920, gi... - gi\|227883920\|ref\|ZP_04001725.1\| DNA gyrase subunit B [Escherichia coli 83972], gi\|227839198\|gb\|EEJ49... gi\|190909423, gi... - gi\|75242511\|ref\|ZP_00726255.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|115515099, gi... - gi\|117625975\|ref\|YP_859298.1\| DNA gyrase subunit B [Escherichia coli APEC O1], gi\|115515099\|gb\|ABJ03...	0.0	[1..804]	[1..804]
gi\|26110870, gi\|... - gi\|26250440\|ref\|NP_756480.1\| DNA gyrase subunit B [Escherichia coli CFT073], gi\|26110870\|gb\|AAN83054... gi\|91213221, gi\|... - gi\|91213221\|ref\|YP_543207.1\| DNA gyrase subunit B [Escherichia coli UTI89], gi\|91074795\|gb\|ABE09676.... gi\|237703499, gi... - gi\|237703499\|ref\|ZP_04533980.1\| subunit B [Escherichia sp. 3_2_53FAA], gi\|226902763\|gb\|EEH89022.1\| s...	0.0	[1..804]	[2..805]
gi\|81243376, gi\|... - gi\|82779228\|ref\|YP_405577.1\| DNA gyrase subunit B [Shigella dysenteriae Sd197], gi\|81243376\|gb\|ABB64...	0.0	[1..804]	[1..804]
GYRB_SHIFL - DNA gyrase subunit B OS=Shigella flexneri GN=gyrB PE=3 SV=2 GYRB_ECOLI - DNA gyrase subunit B (EC 5.99.1.3) - Escherichia coli gi\|30043268, gi\|... - gi\|30065007\|ref\|NP_839178.1\| DNA gyrase subunit B [Shigella flexneri 2a str. 2457T], gi\|30043268\|gb\|... gi\|157068859, gi... - gi\|75197597\|ref\|ZP_00707667.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... GYRB_ECO57 - DNA gyrase subunit B OS=Escherichia coli O157:H7 GN=gyrB PE=3 SV=2 gi\|75210689, gi\|... - gi\|75210689\|ref\|ZP_00710830.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... EG10424 - DNA gyrase, subunit B / DNA gyrase, subunit B; novobiocin, coumermycin resistance gi\|194425377, gi... - gi\|83588435\|ref\|ZP_00927059.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|157077909, gi... - gi\|75188456\|ref\|ZP_00701723.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|110617159, gi... - gi\|110807611\|ref\|YP_691131.1\| DNA gyrase subunit B [Shigella flexneri 5 str. 8401], gi\|110617159\|gb\|... gi\|168772266, gi... - gi\|187771557\|gb\|EDU35401.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4196], gi\|1687722... gi\|189364475, gi... - gi\|189364475\|gb\|EDU82894.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4486], gi\|1687661... gi\|189374237, gi... - gi\|189374237\|gb\|EDU92653.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC869], gi\|16878565... gi\|168779921, gi... - gi\|189002544\|gb\|EDU71530.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4076], gi\|1687799... gi\|170018065, gi... - gi\|170018065\|ref\|YP_001723019.1\| DNA gyrase subunit B [Escherichia coli ATCC 8739], gi\|169752993\|gb\|... gi\|168798734, gi... - gi\|189378801\|gb\|EDU97217.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC508], gi\|16879873... gi\|208728266, gi... - gi\|208808465\|ref\|ZP_03250802.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4206], gi\|208... gi\|15833888, gi\|... - gi\|15833888\|ref\|NP_312661.1\| DNA gyrase subunit B [Escherichia coli O157:H7 str. Sakai], gi\|13364109... gi\|195936320 - gi\|195936320\|ref\|ZP_03081702.1\| DNA gyrase subunit B [Escherichia coli O157:H7 str. EC4024] gi\|168748585, gi... - gi\|188016891\|gb\|EDU55013.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4113], gi\|1687485... gi\|189369611, gi... - gi\|189369611\|gb\|EDU88027.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4501], gi\|1687598... gi\|168753588, gi... - gi\|189359308\|gb\|EDU77727.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4401], gi\|1687535... gi\|238860819, gi... - gi\|238902789\|ref\|YP_002928585.1\| DNA gyrase, subunit B [Escherichia coli BW2952], gi\|238860819\|gb\|AC... gi\|251786965, gi... - gi\|251786965\|ref\|YP_003001269.1\| hypothetical protein B21_03526 [Escherichia coli BL21], gi\|24237923... gi\|253979707, gi... - gi\|254290400\|ref\|YP_003056148.1\| DNA gyrase subunit B [Escherichia coli BL21(DE3)], gi\|253979707\|gb\|... gi\|254163650, gi... - gi\|254163650\|ref\|YP_003046758.1\| DNA gyrase subunit B [Escherichia coli B str. REL606], gi\|253975551... gi\|254795702, gi... - gi\|254795702\|ref\|YP_003080539.1\| DNA gyrase, subunit B [Escherichia coli O157:H7 str. TW14359], gi\|2... gi\|208742117, gi... - gi\|208821994\|ref\|ZP_03262314.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4042], gi\|208... gi\|208733443, gi... - gi\|208812166\|ref\|ZP_03253495.1\| DNA gyrase, B subunit [Escherichia coli O157:H7 str. EC4045], gi\|208... gi\|218363033, gi... - gi\|218556264\|ref\|YP_002389178.1\| DNA gyrase subunit B [Escherichia coli IAI1], gi\|218363033\|emb\|CAR0... gi\|209921176, gi... - gi\|209921176\|ref\|YP_002295260.1\| DNA gyrase subunit B [Escherichia coli SE11], gi\|209914435\|dbj\|BAG7... gi\|218354153, gi... - gi\|218697421\|ref\|YP_002405088.1\| DNA gyrase subunit B [Escherichia coli 55989], gi\|218354153\|emb\|CAV... EG10424 - DNA gyrase, subunit B / DNA gyrase, subunit B; novobiocin, coumermycin resistance gi\|124529046, gi... - gi\|124529046\|ref\|ZP_01700192.1\| DNA gyrase, B subunit [Escherichia coli B], gi\|124500185\|gb\|EAY47662... gi\|75258239, gi\|... - gi\|75258239\|ref\|ZP_00729687.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|75514238, gi\|... - gi\|75514238\|ref\|ZP_00736546.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|190904111, gi... - gi\|75231030\|ref\|ZP_00717465.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|192957551, gi... - gi\|75236423\|ref\|ZP_00720519.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|56480411, gi\|... - gi\|56480411\|ref\|NP_709501.2\| DNA gyrase subunit B [Shigella flexneri 2a str. 301], gi\|56383962\|gb\|AA... gi\|74314013, gi\|... - gi\|74314013\|ref\|YP_312432.1\| DNA gyrase subunit B [Shigella sonnei Ss046], gi\|73857490\|gb\|AAZ90197.1... gi\|89110314, gi\|... - gi\|89110314\|ref\|AP_004094.1\| DNA gyrase, subunit B [Escherichia coli str. K-12 substr. W3110], gi\|85...	0.0	[1..804]	[1..804]
gi\|187428646, gi... - gi\|75177732\|ref\|ZP_00697797.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV... gi\|81247448, gi\|... - gi\|82546037\|ref\|YP_409984.1\| DNA gyrase subunit B [Shigella boydii Sb227], gi\|81247448\|gb\|ABB68156.1...	0.0	[1..804]	[1..804]
gi\|194431109, gi... - gi\|83571498\|ref\|ZP_00922938.1\| COG0187: Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV...	0.0	[1..804]	[1..804]

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Predicted Domain #1

Region A:
Residues: [1-393]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNSYDSSSI KVLKGLDAVR KRPGMYIGDT DDGTGLHHMV FEVVDNAIDE ALAGHCKDIV  60
   61 VTIHADNSVS VTDDGRGIPT GIHPEEGVSA AEVIMTVLHA GGKFDDNSYK VSGGLHGVGV 120
  121 SVVNALSQKL ELVIQRDGKI HRQIYEHGVP QAPLAVTGDT DKTGTMVRFW PSHETFTNVT 180
  181 EFEYEILAKR LRELSFLNSG VSIRLRDKRD GKEDHFHYEG GIKAFVEYLN KNKTPIHPNI 240
  241 FYFSTEKDGI GVEVALQWND GFQENIYCFT NNIPQRDGGT HLAGFRAAMT RTLNAYMDKE 300
  301 GYSKKAKVSA TGDDAREGLI AVVSVKVPDP KFSSQTKDKL VSSEVKSAVE QQMNELLSEY 360
  361 LLENPSDAKI VVGKIIDAAR AREAARRARE MTR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	164.0
Match:	1ei1A
Description:	DNA gyrase B
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [394-731]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RKGALDLAGL PGKLADCQER DPALSELYLV EGDSAGGSAK QGRNRKNQAI LPLKGKILNV  60
   61 EKARFDKMLS SQEVATLITA LGCGIGRDEY NPDKLRYHSI IIMTDADVDG SHIRTLLLTF 120
  121 FYRQMPEIVE RGHVYIAQPP LYKVKKGKQE QYIKDDEAMD QYQISIALDG ATLHANAHAP 180
  181 ALSGEALEKL VSEYNATQKM IGRMERRFPK ALLKELVYQP TLTEADLSDE QTVTRWVNAL 240
  241 ITELNEKEQH GSQWKFDVHT NTEQNLFEPI VRVRTHGVDT DYPLDHEFVT GAEYRRICTL 300
  301 GEKLRGLIEE DAFIERGERR QPVTSFEQAL EWLVKESR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	76.30103
Match:	1bgwA
Description:	TOPOISOMERASE RESIDUES 410-1202,
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [732-804]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RGLAIQRYKG LGEMNPDQLW ETTMDPESRR MLRVTVKDAI AADQLFTTLM GDAVEPRRAF  60
   61 IEENALKAAN IDI

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.64
Match:	1bgwA
Description:	TOPOISOMERASE RESIDUES 410-1202,
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