YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|161364238, gi...
Organism:	Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7
Length:	400 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|161364238, gi....

Description	E-value	Query Range	Subject Range
gi\|16764225, gi\|... - gi\|16764225\|ref\|NP_459840.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Salmonella typhimurium ... lcl\|NC_016856.1_... - [gene=dacC] [protein=D-alanyl-D-alanine carboxypeptidase] [protein_id=YP_005236604.1] [location=9365... gi\|205329616, gi... - gi\|205329616\|gb\|EDZ16380.1\| D-alanyl-D-alanine carboxypeptidase DacC [Salmonella enterica subsp. ent...	0.0	[1..400]	[1..400]
gi\|209918088, gi... - gi\|209918088\|ref\|YP_002292172.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli SE... gi\|215485925, gi... - gi\|215485925\|ref\|YP_002328356.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli O1... gi\|218553425, gi... - gi\|218553425\|ref\|YP_002386338.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli IA... gi\|218426186, gi... - gi\|218688622\|ref\|YP_002396834.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli ED... gi\|195936884 - gi\|195936884\|ref\|ZP_03082266.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli O15... gi\|254591435, gi... - gi\|254792035\|ref\|YP_003076872.1\| D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6a)... gi\|13360378, gi\|... - gi\|15830173\|ref\|NP_308946.1\| D-alanyl-D-alanine carboxypeptidase penicillin-binding protein 6 [Esche... gi\|209775540, gi... - pir\|\|C85594 hypothetical protein dacC [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|15800591, gi\|... - gi\|15800591\|ref\|NP_286605.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli O157:H... gi\|13360378, gi\|... - gi\|15830173\|ref\|NP_308946.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli O157:H... gi\|110641041, gi... - gi\|110641041\|ref\|YP_668771.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli 536],... gi\|157157612, gi... - gi\|157157612\|ref\|YP_001462035.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli E2... gi\|218351045, gi... - gi\|218694313\|ref\|YP_002401980.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli 55... gi\|218369200, gi... - gi\|218699214\|ref\|YP_002406843.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli IA... gi\|218431360, gi... - gi\|218704263\|ref\|YP_002411782.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli UM...	0.0	[1..400]	[1..400]
gi\|75257563 - gi\|75257563\|ref\|ZP_00729060.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli E22] gi\|75238172 - gi\|75238172\|ref\|ZP_00722176.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli F11] gi\|75236104 - gi\|75236104\|ref\|ZP_00720228.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli E11001... gi\|75230689 - gi\|75230689\|ref\|ZP_00717160.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli B7A] gi\|227884197, gi... - gi\|227884197\|ref\|ZP_04002002.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli 839... gi\|75210565 - gi\|75210565\|ref\|ZP_00710713.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli B171] gi\|75189880 - gi\|75189880\|ref\|ZP_00703147.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli E24377... gi\|26107214, gi\|... - gi\|26246814\|ref\|NP_752854.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli CFT073...	0.0	[1..400]	[8..407]
EG10203 - D-alanyl-D-alanine carboxypeptidase; penicillin-binding protein 6a / D-alanine D-alanine carboxypept... gi\|169888333, gi... - gi\|170080498\|ref\|YP_001729818.1\| D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6a)... gi\|170020804, gi... - gi\|170020804\|ref\|YP_001725758.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli AT... gi\|124501401, gi... - gi\|124527056\|ref\|ZP_01698893.1\| Serine-type D-Ala-D-Ala carboxypeptidase [Escherichia coli B], gi\|12... gi\|157065999, gi... - gi\|157160319\|ref\|YP_001457637.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli HS... gi\|242376630, gi... - gi\|251784357\|ref\|YP_002998661.1\| hypothetical protein B21_00823 [Escherichia coli BL21], gi\|24237663... DACC_ECOLI - Penicillin-binding protein 6 precursor (D-alanyl-D-alanine carboxypeptidase fraction C) (EC 3.4.16.4... gi\|238860730, gi... - gi\|238900098\|ref\|YP_002925894.1\| D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6a)... gi\|253972817, gi... - gi\|254160916\|ref\|YP_003044024.1\| D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6a)... gi\|188494572, gi... - gi\|188494572\|ref\|ZP_03001842.1\| penicillin-binding protein 6 [Escherichia coli 53638], gi\|188489771\|... gi\|254287730, gi... - gi\|254287730\|ref\|YP_003053478.1\| D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6a)... gi\|89107690, gi\|... - gi\|89107690\|ref\|AP_001470.1\| D-alanyl-D-alanine carboxypeptidase [Escherichia coli str. K-12 substr.... EG10203 - D-alanyl-D-alanine carboxypeptidase; penicillin-binding protein 6a / D-alanine D-alanine carboxypept...	0.0	[1..400]	[1..400]
gi\|82776165, gi\|... - gi\|82776165\|ref\|YP_402512.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Shigella dysenteriae Sd...	0.0	[1..400]	[1..400]
gi\|75512844 - gi\|75512844\|ref\|ZP_00735336.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli 53638] gi\|75194993 - gi\|75194993\|ref\|ZP_00705063.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli HS] gi\|83586144 - gi\|83586144\|ref\|ZP_00924781.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Escherichia coli 101-1]	0.0	[1..400]	[8..407]
gi\|91209873, gi\|... - gi\|91209873\|ref\|YP_539859.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli UTI89]... gi\|237707198, gi... - gi\|237707198\|ref\|ZP_04537679.1\| penicillin-binding protein 6 [Escherichia sp. 3_2_53FAA], gi\|2268984... gi\|115512143, gi... - gi\|117623019\|ref\|YP_851932.1\| D-alanyl-D-alanine carboxypeptidase fraction C [Escherichia coli APEC ...	0.0	[1..400]	[8..407]
gi\|75178366 - gi\|75178366\|ref\|ZP_00698420.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Shigella boydii BS512]	0.0	[1..400]	[8..407]
gi\|41218 - gi\|41218\|emb\|CAA29775.1\| unnamed protein product [Escherichia coli]	0.0	[1..400]	[1..400]
gi\|49612136, gi\|... - gi\|50121610\|ref\|YP_050777.1\| penicillin-binding protein 6 [Pectobacterium atrosepticum SCRI1043], gi...	0.0	[1..399]	[1..400]

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Predicted Domain #1

Region A:
Residues: [1-400]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTQYASSLRS LAAGSVLLFL FASPVKAEEQ TIAPPGVDAR AWILMDYASG KVLAEGNADE  60
   61 KLDPASLTKI MTSYVVGQAL KAGKIKLTDM VTVGKDAWAT GNPALRGSSV MFLKPGDQVS 120
  121 VADLNKGIII QSGNDACIAL ADYVAGSQES FIGLMNAYAK RLGLTNTTFQ TVHGLDAPGQ 180
  181 FSTARDMALL GKALIHDVPD EYAIHKEKEF TFNNIRQPNR NRLLWSTNLH VDGMKTGTTA 240
  241 GAGYNLVASA TQGDMRLISV VLGAKTDRIR FNESEKLLTW GFRFFETVTP IKPDATFVTQ 300
  301 RVWFGDKREV NLGAGDAGSV TIPRGQLKNL KASFTLNEPQ LTAPLKKGQV VGTIDFQLNG 360
  361 KSIEQRPLMV MENVEEGGFF SRMWDFVLMK LHQWFGSWFS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	98.69897
Match:	1nzoA
Description:	The crystal structure of wild type penicillin-binding protein 5 from E. coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
drug binding	3.43867028493374	bayes_pls_golite062009
peptidase activity	3.14503902416546	bayes_pls_golite062009
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
penicillin binding	2.89507018520983	bayes_pls_golite062009
hydrolase activity	2.80171403488139	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	2.78480589579188	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
catalytic activity	1.85492008367309	bayes_pls_golite062009
serine hydrolase activity	1.69122379434116	bayes_pls_golite062009
serine-type peptidase activity	1.6885532900392	bayes_pls_golite062009
exopeptidase activity	1.24775184094433	bayes_pls_golite062009
binding	1.11566650386305	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: