YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29144281, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. Ty2
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|29144281, gi|....

Description	E-value	Query Range	Subject Range
gi\|62129628, gi\|... - gi\|62181995\|ref\|YP_218412.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serovar C...	0.0	[1..858]	[1..858]
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...	0.0	[1..858]	[1..858]
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...	0.0	[1..858]	[1..858]
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...	0.0	[1..858]	[1..858]
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...	0.0	[1..858]	[1..858]
gi\|74313900, gi\|... - gi\|74313900\|ref\|YP_312319.1\| peptidoglycan synthetase [Shigella sonnei Ss046], gi\|73857377\|gb\|AAZ900...	0.0	[1..858]	[1..858]
gi\|81242937, gi\|... - gi\|82778789\|ref\|YP_405138.1\| peptidoglycan synthetase [Shigella dysenteriae Sd197], gi\|81242937\|gb\|A...	0.0	[1..858]	[1..858]
gi\|22127794, gi\|... - gi\|22127794\|ref\|NP_671217.1\| peptidoglycan synthetase [Yersinia pestis KIM], gi\|21960924\|gb\|AAM87468... gi\|167050897, gi... - gi\|167398393\|ref\|ZP_02303917.1\| penicillin-binding protein 1A [Yersinia pestis biovar Antiqua str. U... gi\|165919965, gi... - gi\|165928016\|ref\|ZP_02223848.1\| penicillin-binding protein 1A [Yersinia pestis biovar Orientalis str... gi\|162139419 - gi\|162139419\|ref\|YP_649848.2\| peptidoglycan synthetase [Yersinia pestis Nepal516] gi\|162100161 - gi\|162100161\|ref\|YP_653232.2\| peptidoglycan synthetase [Yersinia pestis Antiqua] gi\|161511473 - gi\|161511473\|ref\|NP_991547.2\| peptidoglycan synthetase [Yersinia pestis biovar Microtus str. 91001]	0.0	[1..858]	[1..859]
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...	0.0	[1..858]	[1..858]
gi\|606330, gi\|74... - pir\|\|ZPECPA penicillin-binding protein 1A - Escherichia coli (strain K-12), gi\|606330\|gb\|AAA58193.1\|... gi\|16131273, gi\|... - gb\|AAC76421.1\| peptidoglycan synthetase; penicillin-binding protein 1A; bifunctional penicillin-bind... gi\|226839067, gi... - gi\|254038561\|ref\|ZP_04872617.1\| peptidoglycan synthetase [Escherichia sp. 1_1_43], gi\|226839067\|gb\|E... gi\|606330\|gb\|AAA... - CG Site No.484; alternate name ponA [Escherichia coli]	0.0	[1..858]	[1..858]

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Predicted Domain #1

Region A:
Residues: [1-703]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTLNGKSPVK FVKYLLILAV CCILLGAGSI YGLYRYIEPQ LPDVATLKDV RLQIPMQVYS  60
   61 ADGELIAQYG EKRRIPVTLD QIPPEMINAF IATEDSRFYE HHGIDPVGIF RAASVALFSG 120
  121 HASQGASTIT QQLARNFFLS PERTLMRKIK EAFLAIRIEQ LLNKNEILEL YLNKIYLGYR 180
  181 AYGVGAAAQV YFGKTVDQLS LSEMAVIAGL PKAPSTFNPL YSMDRAVARR NVVLSRMLSE 240
  241 GYITQAQYDQ ARSEPIDANY HAPEIAFSAP YLSEMVRQEM YNRYGESAYE DGYRIYTTIT 300
  301 RKVQQAAQQA VRNNVLDYDM RHGYSGPANV LWKVGETAWD SKKITDTLKA LPTYGPLLPA 360
  361 VVTSANPQEA TAALADGTSV SLHMEGMRWA RPYRSDTQQG PTPRKVTDVV QTGQQIWVRQ 420
  421 VDNDWWLAQV PEVNSALVSL NPQTGAVLAL VGGFDFNQSK FNRATQALRQ VGSNIKPFLY 480
  481 TAAMDKGLTL ASMLNDVPIS RWDAGAGSDW RPKNSPPQYA GPIRLRQGLG QSKNVVMVRA 540
  541 MRAMGVDYAA EYLQRFGFPA QNIVHTESLA LGSASFTPMQ VARGYAVMAN GGFLIDPYFI 600
  601 SKIENDQGGV IFEAKPKIAC TECDIPVIYG NTQKSDVLEN TNVEEVAVSQ EQQNSAVPMP 660
  661 ELEQANQALV AQNGTQEYAP HVINTPLAFL IKSALNTNIF GEP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	102.0
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: [704-858]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GWMGTGWRAA RDLKRRDIGG KTGTTNSSKD AWFSGYGPGV VTSVWIGFDD HRRDLGRTTA  60
   61 SGAIKDQISG YEGGAKSAQP AWDAYMKAVL EGVPEQPLTP PPGIVTVNID RSTGQLASGG 120
  121 NSREEYFIEG TQPTQQAVHE VGTTIIDNGE THELF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.0
Match:	2c5wB
Description:	PENICILLIN-BINDING PROTEIN 1A (PBP-1A) ACYL-ENZYME COMPLEX ( CEFOTAXIME) FROM STREPTOCOCCUS PNEUMONIAE
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

Predicted functions: