YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|25513833, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi
Length:	455 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|25513833, gi|....

Description	E-value	Query Range	Subject Range
gi\|62178826, gi\|... - gi\|62178826\|ref\|YP_215243.1\| membrane-bound lytic murein transglycosylase D [Salmonella enterica sub...	1.0E-85	[1..455]	[1..455]
gi\|209745516, gi... - pir\|\|G85505 hypothetical protein dniR [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|12512939, gi\|... - gi\|15799887\|ref\|NP_285899.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli O157:H... gi\|13359663, gi\|... - gi\|15829461\|ref\|NP_308234.1\| cytochrome c552 [Escherichia coli O157:H7], gi\|13359663\|dbj\|BAB33630.1\|... gi\|13359663, gi\|... - gi\|15829461\|ref\|NP_308234.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli O157:H... gi\|254590738, gi... - gi\|254791338\|ref\|YP_003076175.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli O1... gi\|218368828, gi... - gi\|218698842\|ref\|YP_002406471.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli IA...	2.0E-83	[1..455]	[1..452]
gi\|75241728 - gi\|75241728\|ref\|ZP_00725565.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory...	3.0E-83	[1..455]	[1..452]
gi\|81239745, gi\|... - gi\|82775597\|ref\|YP_401944.1\| membrane-bound lytic murein transglycosylase D [Shigella dysenteriae Sd...	3.0E-83	[1..455]	[1..452]
gi\|110640426, gi... - gi\|110640426\|ref\|YP_668154.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli 536],...	5.0E-83	[1..455]	[1..452]
gi\|238899604, gi... - gi\|238899604\|ref\|YP_002925400.1\| putative membrane-bound lytic murein transglycosylase D [Escherichi... gi\|237707795, gi... - gi\|237707795\|ref\|ZP_04538276.1\| transcriptional regulator for nitrite reductase [Escherichia sp. 3_2... gi\|227838231, gi... - gi\|227884790\|ref\|ZP_04002595.1\| possible membrane-bound lytic murein transglycosylase D [Escherichia... gi\|75258801 - gi\|75258801\|ref\|ZP_00730191.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|91209279, gi\|... - gi\|91209279\|ref\|YP_539265.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli UTI89]... gi\|188487912, gi... - gi\|75513658\|ref\|ZP_00736049.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|75229809 - gi\|75229809\|ref\|ZP_00716336.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|75238910 - gi\|75238910\|ref\|ZP_00722892.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|74310826, gi\|... - gi\|74310826\|ref\|YP_309245.1\| membrane-bound lytic murein transglycosylase D [Shigella sonnei Ss046],... gi\|89107086, gi\|... - gi\|89107086\|ref\|AP_000866.1\| predicted membrane-bound lytic murein transglycosylase D [Escherichia c... gi\|83570288 - gi\|83570288\|ref\|ZP_00921734.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|170021441, gi... - gi\|170021441\|ref\|YP_001726395.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli AT... gi\|169887677, gi... - gi\|170079842\|ref\|YP_001729162.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli st... gi\|157065352, gi... - gi\|75194417\|ref\|ZP_00704487.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|209910657, gi... - gi\|209917398\|ref\|YP_002291482.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli SE... gi\|75211236 - gi\|75211236\|ref\|ZP_00711343.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|215263439, gi... - gi\|215485367\|ref\|YP_002327798.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli O1... gi\|83586292 - gi\|83586292\|ref\|ZP_00924927.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|218355202, gi... - gi\|218547661\|ref\|YP_002381452.1\| membrane-bound lytic murein transglycosylase D [Escherichia ferguso... gi\|157157200, gi... - gi\|75189303\|ref\|ZP_00702570.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|218363916, gi... - gi\|218557147\|ref\|YP_002390060.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli S8... gi\|115511617, gi... - gi\|117622493\|ref\|YP_851406.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli APEC ... gi\|124500995, gi... - gi\|124527831\|ref\|ZP_01699220.1\| MLTD_N domain protein [Escherichia coli B], gi\|124500995\|gb\|EAY48462... MLTD_ECOL6 - Membrane-bound lytic murein transglycosylase D OS=Escherichia coli O6 GN=mltD PE=3 SV=1 gi\|218350405, gi... - gi\|218693673\|ref\|YP_002401340.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli 55... MLTD_ECOL6 - Membrane-bound lytic murein transglycosylase D OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 70092... gi\|218703460, gi... - gi\|218703460\|ref\|YP_002410979.1\| membrane-bound lytic murein transglycosylase D [Escherichia coli UM... EG10246 - putative membrane-bound lytic murein transglycosylase D / Membrane-bound lytic transglycosylase D, m... MLTD_ECOLI - Membrane-bound lytic murein transglycosylase D precursor (EC 3.2.1.-) (Murein hydrolase D) (Regulato... gi\|254160325, gi... - gi\|254160325\|ref\|YP_003043433.1\| predicted membrane-bound lytic murein transglycosylase D [Escherich... EG10246 - putative membrane-bound lytic murein transglycosylase D / Membrane-bound lytic transglycosylase D, m... gi\|254287128, gi... - gi\|254287128\|ref\|YP_003052876.1\| predicted membrane-bound lytic murein transglycosylase D [Escherich... gi\|242376041, gi... - gi\|251783768\|ref\|YP_002998072.1\| hypothetical protein B21_00209 [Escherichia coli BL21], gi\|24237604...	6.0E-83	[1..455]	[1..452]
gi\|81244215, gi\|... - gi\|82542804\|ref\|YP_406751.1\| membrane-bound lytic murein transglycosylase D [Shigella boydii Sb227],... gi\|187730415, gi... - gi\|75176775\|ref\|ZP_00696891.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory...	6.0E-83	[1..455]	[1..452]
gi\|110613806, gi... - gi\|110804258\|ref\|YP_687778.1\| membrane-bound lytic murein transglycosylase D [Shigella flexneri 5 st...	1.0E-82	[1..455]	[1..452]
gi\|56383176, gi\|... - gi\|56479625\|ref\|NP_706152.2\| membrane-bound lytic murein transglycosylase D [Shigella flexneri 2a st... gi\|30061763, gi\|... - gi\|30061763\|ref\|NP_835934.1\| membrane-bound lytic murein transglycosylase D [Shigella flexneri 2a st...	2.0E-81	[1..455]	[1..448]
gi\|254845073, gi... - gi\|75831263\|ref\|ZP_00760528.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|183179463, gi... - gi\|183179463\|ref\|ZP_02957674.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae MZO-... gi\|254286454, gi... - gi\|254286454\|ref\|ZP_04961411.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae AM-1... gi\|149741019, gi... - gi\|153825335\|ref\|ZP_01978002.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae MZO-... gi\|153829937, gi... - gi\|153829937\|ref\|ZP_01982604.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae 623-... gi\|121549551, gi... - gi\|121586285\|ref\|ZP_01676075.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae 2740... gi\|229369847, gi... - gi\|229607192\|ref\|YP_002877840.1\| membrane-bound lytic murein transglycosylase D precursor [Vibrio ch... gi\|124115733, gi... - gi\|153213809\|ref\|ZP_01949017.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae 1587... gi\|229332533, gi... - gi\|229528759\|ref\|ZP_04418149.1\| membrane-bound lytic murein transglycosylase D precursor [Vibrio cho... gi\|124119829, gi... - gi\|153221300\|ref\|ZP_01952315.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae MAK ... gi\|229519252, gi... - gi\|229519252\|ref\|ZP_04408695.1\| membrane-bound lytic murein transglycosylase D precursor [Vibrio cho... gi\|9656796, gi\|1... - gi\|9656796\|gb\|AAF95381.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae O1 biovar ... gi\|153817123, gi... - gi\|153817123\|ref\|ZP_01969790.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae NCTC... gi\|229355193, gi... - gi\|229507688\|ref\|ZP_04397193.1\| membrane-bound lytic murein transglycosylase D precursor [Vibrio cho... gi\|11355651 - pir\|\|B82102 membrane-bound lytic murein transglycosylase D VC2237 [imported] - Vibrio cholerae (stra... gi\|229512117, gi... - gi\|229512117\|ref\|ZP_04401596.1\| membrane-bound lytic murein transglycosylase D precursor [Vibrio cho... gi\|227082361, gi... - gi\|227082361\|ref\|YP_002810912.1\| membrane-bound lytic murein transglycosylase D [Vibrio cholerae M66... gi\|146315687, gi... - gi\|75827527\|ref\|ZP_00756962.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|75824350, gi\|... - gi\|75824350\|ref\|ZP_00753807.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|254225772, gi... - gi\|75820870\|ref\|ZP_00750908.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory... gi\|75817020, gi\|... - gi\|75817020\|ref\|ZP_00747476.1\| COG0741: Soluble lytic murein transglycosylase and related regulatory...	1.0E-71	[1..453]	[1..473]

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Predicted Domain #1

Region A:
Residues: [1-261]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKAKAILLAS VLLVGCQTSQ NTGNVQQHAQ SLSAAGQGEA GKFTSQARWM DDGTSIAPDQ  60
   61 DLWAFIGDEL KMGIPENSRI REQKQKYLRN KSYLHDVTLR AEPYMYWIAG QVKKRNMPME 120
  121 LVLLPIVESA FDPHATSGAN AAGIWQIIPS TGRNYGLKQT RNYDARRDVV ASTTAALDMM 180
  181 QRLNKMFDGD WLLTVAAYNS GEGRVMRAIK ANKARGKPTD FWSLSLPRET KLYVPKMLAL 240
  241 SEILKNSKRY GVRLPTTDES R

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	29.69897
Match:	1qsaA
Description:	70 KDa soluble lytic transglycosylase (SLT70), superhelical domain; 70 kDa soluble lytic transglycosylase, SLT70
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
penicillin binding	2.64957480679626	bayes_pls_golite062009
catalytic activity	1.95328415115451	bayes_pls_golite062009
lysozyme activity	1.83799209924951	bayes_pls_golite062009
drug binding	1.54697929389118	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	1.16054683174437	bayes_pls_golite062009
hydrolase activity, hydrolyzing O-glycosyl compounds	1.07226857049823	bayes_pls_golite062009
hydrolase activity	0.677491712259	bayes_pls_golite062009
transferase activity, transferring glycosyl groups	0.45061419828567	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [262-391]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ALARVRLNSP VEMAQVADMA GMSISKLKTF NAGVKGSTLG VSGPQYVMVP KKHAEQLRES  60
   61 LASGEIDAVQ SQLIADNTPL NSRSYKVRSG DTLSGIASRL GVSTKDLQQW NNLRGSRLKI 120
  121 GQSLTVGAGS

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.568	0.738	cell wall macromolecule catabolic process	d.7.1	LysM domain
View	Download	0.424	0.028	cell wall macromolecule catabolic process	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.458	0.003	cell wall macromolecule catabolic process	a.4.6	C-terminal effector domain of the bipartite response regulators
View	Download	0.568	N/A	N/A	d.7.1	LysM domain
View	Download	0.444	N/A	N/A	d.7.1	LysM domain

Predicted Domain #3

Region A:
Residues: [392-455]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SAQRLANNSD SITYRVRKGD SLSSIARRHG VNIKDVMRWN HDTDNLQPGD QLTLFVKDNS  60
   61 TPDS

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.72
Match:	2djpA
Description:	No description for 2djpA was found.

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: