YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|200388309, gi...
Organism:	Salmonella enterica subsp. enterica serovar Virchow str. SL491
Length:	588 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|200388309, gi....

Description	E-value	Query Range	Subject Range
gi\|56126651, gi\|... - gi\|56412394\|ref\|YP_149469.1\| penicillin-binding protein 3 precursor [Salmonella enterica subsp. ente... gi\|197361330, gi... - gi\|197361330\|ref\|YP_002140965.1\| penicillin-binding protein 3 precursor [Salmonella enterica subsp. ...	0.0	[1..588]	[1..588]
gi\|227837840, gi... - gi\|227885011\|ref\|ZP_04002816.1\| peptidoglycan synthetase ftsI precursor [Escherichia coli 83972], gi... gi\|26106414, gi\|... - gi\|26246017\|ref\|NP_752056.1\| peptidoglycan synthetase ftsI precursor [Escherichia coli CFT073], gi\|2...	0.0	[1..588]	[1..588]
gi\|91209148, gi\|... - gi\|91209148\|ref\|YP_539134.1\| peptidoglycan synthetase FtsI precursor [Escherichia coli UTI89], gi\|91... gi\|110640297, gi... - gi\|110640297\|ref\|YP_668025.1\| peptidoglycan synthetase FtsI precursor [Escherichia coli 536], gi\|110... gi\|215485250, gi... - gi\|215485250\|ref\|YP_002327681.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|218363793, gi... - gi\|218557024\|ref\|YP_002389937.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|117622370, gi... - gi\|117622370\|ref\|YP_851283.1\| peptidoglycan synthetase FtsI precursor [Escherichia coli APEC O1], gi... gi\|226902145, gi... - gi\|237704233\|ref\|ZP_04534714.1\| peptidoglycan synthetase FtsI [Escherichia sp. 3_2_53FAA], gi\|226902...	0.0	[1..588]	[1..588]
gi\|157159555, gi... - gi\|75194301\|ref\|ZP_00704371.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc...	0.0	[1..588]	[1..588]
gi\|124499075, gi... - gi\|124530651\|ref\|ZP_01701235.1\| Peptidoglycan glycosyltransferase [Escherichia coli B], gi\|124499075... EG10341 - transpeptidase involved in septal peptidoglycan synthesis; penicillin-binding protein 3 / Transpetid... gi\|82542688, gi\|... - gi\|82542688\|ref\|YP_406635.1\| penicillin-binding protein 3 [Shigella boydii Sb227], gi\|81244099\|gb\|AB... gi\|187767738, gi... - gi\|187767738\|gb\|EDU31582.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4196], gi... gi\|168781969, gi... - gi\|189000488\|gb\|EDU69474.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4076], gi... gi\|188493699, gi... - gi\|75511692\|ref\|ZP_00734330.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc... gi\|189370795, gi... - gi\|189370795\|gb\|EDU89211.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC869], gi\|... gi\|81239639, gi\|... - gi\|82775491\|ref\|YP_401838.1\| penicillin-binding protein 3 [Shigella dysenteriae Sd197], gi\|81239639\|... gi\|189376341, gi... - gi\|189376341\|gb\|EDU94757.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC508], gi\|... gi\|169756488, gi... - gi\|170021560\|ref\|YP_001726514.1\| peptidoglycan glycosyltransferase [Escherichia coli ATCC 8739], gi\|... gi\|169887558, gi... - gi\|170079723\|ref\|YP_001729043.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|194434425, gi... - gi\|194434425\|ref\|ZP_03066687.1\| peptidoglycan synthetase FtsI [Shigella dysenteriae 1012], gi\|194417... gi\|195939300 - gi\|195939300\|ref\|ZP_03084682.1\| transpeptidase involved in septal peptidoglycan synthesis (penicilli... gi\|194439402, gi... - gi\|83585194\|ref\|ZP_00923844.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc... gi\|187429547, gi... - gi\|75175641\|ref\|ZP_00695849.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Shi... FTSI_ECO57 - Peptidoglycan synthase FtsI OS=Escherichia coli O157:H7 GN=ftsI PE=3 SV=1 EG10341 - transpeptidase involved in septal peptidoglycan synthesis; penicillin-binding protein 3 / Transpetid... gi\|75229067, gi\|... - gi\|75229067\|ref\|ZP_00715647.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc... gi\|188014547, gi... - gi\|188014547\|gb\|EDU52669.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4113], gi... gi\|15799768, gi\|... - gi\|15799768\|ref\|NP_285780.1\| septum formation; penicillin-binding protein 3; peptidoglycan synthetas... gi\|193065898, gi... - gi\|75256044\|ref\|ZP_00727757.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc... gi\|189356981, gi... - gi\|189356981\|gb\|EDU75400.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4401], gi... gi\|75189184, gi\|... - gi\|75189184\|ref\|ZP_00702451.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc... gi\|168764037, gi... - gi\|189365882\|gb\|EDU84298.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4501], gi... gi\|75209395, gi\|... - gi\|75209395\|ref\|ZP_00709627.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc... gi\|168771308, gi... - gi\|189359918\|gb\|EDU78337.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4486], gi... gi\|218430441, gi... - gi\|218703344\|ref\|YP_002410863.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|89106967, gi\|... - gi\|89106967\|ref\|AP_000747.1\| transpeptidase involved in septal peptidoglycan synthesis [Escherichia ... gi\|15829342, gi\|... - gi\|15829342\|ref\|NP_308115.1\| hypothetical protein ECs0088 [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|208726043, gi... - gi\|208806242\|ref\|ZP_03248579.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4206]... gi\|238899485, gi... - gi\|238899485\|ref\|YP_002925281.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|208814211, gi... - gi\|208814211\|ref\|ZP_03255540.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4045]... gi\|251783647, gi... - gi\|251783647\|ref\|YP_002997951.1\| hypothetical protein B21_00084 [Escherichia coli BL21], gi\|24237592... gi\|208741128, gi... - gi\|208821005\|ref\|ZP_03261325.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4042]... gi\|253325930, gi... - gi\|254287009\|ref\|YP_003052757.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|209159071, gi... - gi\|209397671\|ref\|YP_002268692.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. EC4115... gi\|226840605, gi... - gi\|254037499\|ref\|ZP_04871576.1\| transpeptidase [Escherichia sp. 1_1_43], gi\|226840605\|gb\|EEH72607.1\|... gi\|209910536, gi... - gi\|209917277\|ref\|YP_002291361.1\| penicillin-binding protein 3 [Escherichia coli SE11], gi\|209910536\|... gi\|254160206, gi... - gi\|254160206\|ref\|YP_003043314.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|217321630, gi... - gi\|217325409\|ref\|ZP_03441493.1\| peptidoglycan synthetase FtsI [Escherichia coli O157:H7 str. TW14588... gi\|254590621, gi... - gi\|254791221\|ref\|YP_003076058.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... gi\|218359435, gi... - gi\|218552667\|ref\|YP_002385580.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill... FTSI_ECOLI - Peptidoglycan synthetase ftsI precursor (EC 2.4.1.129) (Peptidoglycan glycosyltransferase 3) (Penici... gi\|218350285, gi... - gi\|218693553\|ref\|YP_002401220.1\| transpeptidase involved in septal peptidoglycan synthesis (penicill...	0.0	[1..588]	[1..588]
gi\|193070824, gi... - gi\|75234321\|ref\|ZP_00718699.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Esc...	0.0	[1..588]	[1..588]
gi\|110613696, gi... - gi\|110804148\|ref\|YP_687668.1\| penicillin-binding protein 3; peptidoglycan synthetase [Shigella flexn...	0.0	[1..588]	[1..588]
gi\|74310703, gi\|... - gi\|74310703\|ref\|YP_309122.1\| septum formation; penicillin-binding protein 3; peptidoglycan synthetas...	0.0	[1..588]	[1..588]
gi\|24050287, gi\|... - gi\|24111529\|ref\|NP_706039.1\| penicillin-binding protein 3; peptidoglycan synthetase [Shigella flexne... gi\|30039893, gi\|... - gi\|30061651\|ref\|NP_835822.1\| penicillin-binding protein 3; peptidoglycan synthetase [Shigella flexne...	0.0	[1..588]	[1..588]
gi\|238729300, gi... - gi\|77977558\|ref\|ZP_00833003.1\| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Yer...	0.0	[1..588]	[1..587]

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Predicted Domain #1

Region A:
Residues: [1-588]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKAAAKTQKS KRQEEQTNFI SWRFALLCGC ILLALVFLLG RAAWLQIIAP DMLVRQGDMR  60
   61 SLRVQEVSTS RGMITDRSGR PLAVSVPVKA IWADPKEVHD AGGISVGDRW KALSTALNIP 120
  121 LDQLSARINA NPKGRFIYLA RQVNPDMADY IKKLKLPGIH LREESRRYYP SGEVTAHLIG 180
  181 FTNVDSQGIE GVEKSFDKWL TGQPGERIVR KDRYGRVIED ISSTDSQAAH NLALSIDERL 240
  241 QALVYRELNN AVAFNKAESG SAVLVDVNTG EVLAMANSPS YNPNNLAGTP KDAMRNRTIT 300
  301 DVFEPGSTVK PMVVMTALQR GIVNENTVLN TVPYRINGHE IKDVARYSEL TLTGVLQKSS 360
  361 NVGVSKLALA MPSSALVDTY SRFGLGKATN LGLVGERSGL YPQKQRWSDI ERATFSFGYG 420
  421 LMVTPLQLAR VYATIGSYGI YRPLSITKVD PPVPGERIFP ESTVRTVVHM MESVALPGGG 480
  481 GVKAAIKGYR IAIKTGTAKK VGPDGRYINK YIAYTAGVAP ASQPRFALVV VINDPQAGKY 540
  541 YGGAVSAPVF GAIMGGVLRT MNIEPDALAT GEKNEFVINQ GEGTGGRS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	95.0
Match:	1qmeA
Description:	Penicillin-binding protein 2x (pbp-2x), c-terminal domain; Penicillin-binding protein 2x (pbp-2x), N-terminal domain; Penicillin-binding protein 2x (pbp-2x), transpeptidase domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
drug binding	2.00030594135732	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
penicillin binding	1.46269268256076	bayes_pls_golite062009
exopeptidase activity	1.44522375970439	bayes_pls_golite062009
binding	1.43165609051179	bayes_pls_golite062009
catalytic activity	0.767627914425245	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	0.163657050466595	bayes_pls_golite062009
protein binding	0.0666688846338231	bayes_pls_golite062009

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: