YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|115345967, gi...
Organism:	Yersinia pestis CO92
Length:	851 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|115345967, gi....

Description	E-value	Query Range	Subject Range
Q664L3\|Q664L3_YERPS - Penicillin-binding protein - Yersinia pseudotuberculosis gi\|51591328, gi\|... - gi\|51598046\|ref\|YP_072237.1\| penicillin-binding protein (penicillin-insensitive transglyco... [Yersi... gi\|186700271, gi... - gi\|186897245\|ref\|YP_001874357.1\| peptidoglycan synthetase [Yersinia pseudotuberculosis PB1/+], gi\|18...	0.0	[1..851]	[1..851]
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..851]	[9..859]
gi\|77634586 - gi\|77634586\|ref\|ZP_00796683.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin... gi\|77631126, gi\|... - gi\|77631126\|ref\|ZP_00793712.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin... gi\|89105806 - gi\|89105806\|ref\|ZP_01178319.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin...	0.0	[12..851]	[1..840]
gi\|77958296, gi\|... - gi\|77958296\|ref\|ZP_00822332.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin...	0.0	[12..851]	[1..840]
gi\|77975047, gi\|... - gi\|77975047\|ref\|ZP_00830584.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin...	0.0	[12..851]	[1..840]
gi\|77976422, gi\|... - gi\|77976422\|ref\|ZP_00831912.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin...	0.0	[12..851]	[1..840]
gi\|77962681, gi\|... - gi\|77962681\|ref\|ZP_00826498.1\| COG5009: Membrane carboxypeptidase/penicillin-binding protein [Yersin...	0.0	[12..851]	[1..840]
gi\|62129628, gi\|... - gi\|62181995\|ref\|YP_218412.1\| peptidoglycan synthetase [Salmonella enterica subsp. enterica serovar C...	0.0	[1..851]	[9..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..851]	[9..858]
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...	0.0	[1..851]	[9..858]

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Predicted Domain #1

Region A:
Residues: [1-185]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKFVKYFLIL AVCCILLGAA SIFGLYKYIE PQLPDVATLK DIRLQTPMQV YSAEGELIAQ  60
   61 FGEKRRIPLT LNQIPPEMVH AFIATEDSRF YDHHGVDPVG ILRAVSIAML SGRASQGAST 120
  121 ITQQLARNFF LSPERTLMRK IKEAFLAIRI EQMLTKDEIL ELYLNKIYLG YRAYGVGAAA 180
  181 QVYFG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	94.69897
Match:	2oluA
Description:	No description for 2oluA was found.

Predicted Domain #2

Region A:
Residues: [186-756]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KEVHELTLSQ IAMIAGLPKA PSTFNPLYSH DRAVARRNVV LLRMLDEKYI TQAQYDQARS  60
   61 EELVANYHVP QIAFSAPYLA EMVRQEMIKR YGENAYTDGY QVYTTITRKL QLAAVDSLRA 120
  121 NVLAYDMRHG YRGPSNVLWK VGESAWSREQ IIDSLKALPV YGPLLPAVVT EADAAQATAM 180
  181 LADGSNVTLP MVGIRWARPF KSDNAQGPVP KKATDVVQPG QQIWVRKVDD NWWLAQVPDV 240
  241 NSALVSIDPN NGAIKALVGG FDFNQSKFNR ATQALRQVGS NIKPFLYTAA MDKGLTLATI 300
  301 LNDLPITRWD SGAGTDWRPK NSPPTYDGPI RLRQGLGQSK NVVMVRAMRA MGVDYAAEYL 360
  361 QRFGFPAQNI VHSESLALGS ASFTPLQLVR GYAVLANGGY LVDPYFITKI TDDVGNVLFE 420
  421 TKPKVVCDNC NLPVIYGDTQ RSVVLSDDNI ENVATSQNQN ASNVPMPELE QVTPAQTTLN 480
  481 SEQQYAPHVI STPLAFLMRD ALNSNIFGEP GWMGTGWRAG RDLKRKDIGG KTGTTNSSKD 540
  541 AWFSGYGPDT VTSVWIGFDD HRRNLGRSTA S

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.69897
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
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

Predicted Domain #3

Region A:
Residues: [757-851]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GAIPDQISGA EGGAKTAQPA WNDFMKVALE GLPEKQVPPP PGIVSVVIDK QTGKLSNGGP  60
   61 GSRSEYFIDG TQPTEHTVHE VGTTLMDNGQ THELF

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.64
Match:	2bg1A
Description:	Active site restructuring regulates ligand recognition in classA Penicillin-binding proteins (PBPs)
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: