YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|606330\|gb\|AAA...
Organism:	Escherichia coli str. K-12 substr. MG1655
Length:	858 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|606330|gb|AAA....

Description	E-value	Query Range	Subject Range
gi\|26110419, gi\|... - gi\|26249990\|ref\|NP_756030.1\| peptidoglycan synthetase [Escherichia coli CFT073], gi\|26110419\|gb\|AAN8... gi\|227883526, gi... - gi\|227883526\|ref\|ZP_04001331.1\| penicillin-binding protein 1A [Escherichia coli 83972], gi\|227839405...	765.0	[0..1]	[858..1]
gi\|91212868, gi\|... - gi\|91212868\|ref\|YP_542854.1\| peptidoglycan synthetase [Escherichia coli UTI89], gi\|91074442\|gb\|ABE09... gi\|226902387, gi... - gi\|237703123\|ref\|ZP_04533604.1\| peptidoglycan synthetase [Escherichia sp. 3_2_53FAA], gi\|226902387\|g... gi\|117625663, gi... - gi\|117625663\|ref\|YP_858986.1\| peptidoglycan synthetase [Escherichia coli APEC O1], gi\|115514787\|gb\|A...	764.0	[0..1]	[858..1]
gi\|74313900, gi\|... - gi\|74313900\|ref\|YP_312319.1\| peptidoglycan synthetase [Shigella sonnei Ss046], gi\|73857377\|gb\|AAZ900...	763.0	[0..1]	[858..1]
gi\|15833492, gi\|... - gi\|15833492\|ref\|NP_312265.1\| peptidoglycan synthetase [Escherichia coli O157:H7 str. Sakai], gi\|1336... gi\|188024499, gi... - gi\|188024499\|ref\|ZP_02772152.2\| penicillin-binding protein 1A [Escherichia coli O157:H7 str. EC4113]... gi\|15833492, gi\|... - gi\|15833492\|ref\|NP_312265.1\| peptidoglycan synthetase [Escherichia coli O157:H7], gi\|13363712\|dbj\|BA... gi\|209756602, gi... - pir\|\|D86004 peptidoglycan synthetase [imported] - Escherichia coli (strain O157:H7, substrain EDL93... gi\|12518019, gi\|... - gi\|15803899\|ref\|NP_289935.1\| peptidoglycan synthetase [Escherichia coli O157:H7 EDL933], gi\|12518019...	762.0	[0..1]	[858..1]
gi\|81242937, gi\|... - gi\|82778789\|ref\|YP_405138.1\| peptidoglycan synthetase [Shigella dysenteriae Sd197], gi\|81242937\|gb\|A...	762.0	[0..1]	[858..1]
gi\|82545751, gi\|... - gi\|82545751\|ref\|YP_409698.1\| peptidoglycan synthetase [Shigella boydii Sb227], gi\|81247162\|gb\|ABB678...	760.0	[0..1]	[858..1]
gi\|224469815, gi... - gi\|224585287\|ref\|YP_002639086.1\| penicillin-binding protein 1A [Salmonella enterica subsp. enterica ... lcl\|NC_016856.1_... - [gene=mrcA] [protein=peptidoglycan synthetase] [protein_id=YP_005239691.1] [location=3660524..366310... gi\|16422051, gi\|... - gi\|16766781\|ref\|NP_462396.1\| peptidoglycan synthetase [Salmonella typhimurium LT2], gi\|16422051\|gb\|A...	760.0	[0..1]	[858..1]
gi\|62129628, gi\|... - gi\|62181995\|ref\|YP_218412.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serovar C...	760.0	[0..1]	[858..1]
gi\|197095815, gi... - gi\|197364338\|ref\|YP_002143975.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serov... gi\|56415408, gi\|... - gi\|56415408\|ref\|YP_152483.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serovar P...	758.0	[0..1]	[858..1]
gi\|16762794 - gi\|16762794\|ref\|NP_458411.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serovar T... gi\|25297705, gi\|... - gi\|25297705\|pir\|\|AE0999 penicillin-binding protein 1A [imported] - Salmonella enterica subsp. enteri... gi\|29144281, gi\|... - gi\|29144281\|ref\|NP_807623.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serovar T...	757.0	[0..1]	[858..1]

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Predicted Domain #1

Region A:
Residues: [1-696]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKLNGKFPVK FVKYFLILAV CCILLGAGSI YGLYRYIEPQ LPDVATLKDV RLQIPMQIYS  60
   61 ADGELIAQYG EKRRIPVTLD QIPPEMVKAF IATEDSRFYE HHGVDPVGIF RAASVALFSG 120
  121 HASQGASTIT QQLARNFFLS PERTLMRKIK EVFLAIRIEQ LLTKDEILEL YLNKIYLGYR 180
  181 AYGVGAAAQV YFGKTVDQLT LNEMAVIAGL PKAPSTFNPL YSMDRAVARR NVVLSRMLDE 240
  241 GYITQQQFDQ TRTEAINANY HAPEIAFSAP YLSEMVRQEM YNRYGESAYE DGYRIYTTIT 300
  301 RKVQQAAQQA VRNNVLDYDM RHGYRGPANV LWKVGESAWD NNKITDTLKA LPTYGPLLPA 360
  361 AVTSANPQQA TAMLADGSTV ALSMEGVRWA RPYRSDTQQG PTPRKVTDVL QTGQQIWVRQ 420
  421 VGDAWWLAQV PEVNSALVSI NPQNGAVMAL VGGFDFNQSK FNRATQALRQ VGSNIKPFLY 480
  481 TAAMDKGLTL ASMLNDVPIS RWDASAGSDW QPKNSPPQYA GPIRLRQGLG QSKNVVMVRA 540
  541 MRAMGVDYAA EYLQRFGFPA QNIVHTESLA LGSASFTPMQ VARGYAVMAN GGFLVDPWFI 600
  601 SKIENDQGGV IFEAKPKVAC PECDIPVIYG DTQKSNVLEN NDVEDVAISR EQQNVSVPMP 660
  661 QLEQANQALV AKTGAQEYAP HVINTPLAFL IKSALN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	94.221849
Match:	2oluA
Description:	No description for 2oluA was found.

Predicted functions:

Term	Confidence	Notes
drug binding	3.43867028493374	bayes_pls_golite062009
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
penicillin binding	2.89507018520983	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides	2.14702453234629	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
catalytic activity	1.85492008367309	bayes_pls_golite062009
exopeptidase activity	1.44522375970439	bayes_pls_golite062009
hydrolase activity, hydrolyzing O-glycosyl compounds	1.11667329067303	bayes_pls_golite062009
binding	1.11566650386305	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	0.80962743884654	bayes_pls_golite062009
peptidase activity	0.376767771035659	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	0.163657050466595	bayes_pls_golite062009
protein binding	0.0666688846338231	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [697-858]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TNIFGEPGWQ GTGWRAGRDL QRRDIGGKTG TTNSSKDAWF SGYGPGVVTS VWIGFDDHRR  60
   61 NLGHTTASGA IKDQISGYEG GAKSAQPAWD AYMKAVLEGV PEQPLTPPPG IVTVNIDRST 120
  121 GQLANGGNSR EEYFIEGTQP TQQAVHEVGT TIIDNGEAQE LF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	70.221849
Match:	1rp5A
Description:	PBP2x from Streptococcus pneumoniae strain 5259 with reduced susceptibility to beta-lactam antibiotics
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
drug binding	3.43867028493374	bayes_pls_golite062009
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
penicillin binding	2.89507018520983	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides	2.14702453234629	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
catalytic activity	1.85492008367309	bayes_pls_golite062009
exopeptidase activity	1.44522375970439	bayes_pls_golite062009
binding	1.11566650386305	bayes_pls_golite062009
peptidase activity	0.376767771035659	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:

Predicted functions: