YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|214000728
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E98-3139
Length:	264 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|214000728.

Description	E-value	Query Range	Subject Range
SPED_SHIFL - S-adenosylmethionine decarboxylase proenzyme OS=Shigella flexneri GN=speD PE=3 SV=1 gi\|24111563, gi\|... - gi\|24111563\|ref\|NP_706073.1\| S-adenosylmethionine decarboxylase [Shigella flexneri 2a str. 301], gi\|... gi\|30061685, gi\|... - gi\|30061685\|ref\|NP_835856.1\| S-adenosylmethionine decarboxylase [Shigella flexneri 2a str. 2457T], g... SPED_ECO57 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O157:H7 GN=speD PE=3 SV=1 EG10962 - S-adenosylmethionine decarboxylase / S-adenosylmethionine decarboxylase, spermidine biosynthesis; tw... gi\|15799804, gi\|... - gi\|15799804\|ref\|NP_285816.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 EDL933], g... SPED_ECOBW - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=s... gi\|251783680, gi... - gi\|251783680\|ref\|YP_002997984.1\| hypothetical protein B21_00118 [Escherichia coli BL21], gi\|24237595... gi\|253325896, gi... - gi\|254287043\|ref\|YP_003052791.1\| S-adenosylmethionine decarboxylase proenzyme [Escherichia coli BL21... gi\|254037536, gi... - gi\|254037536\|ref\|ZP_04871613.1\| S-adenosylmethionine decarboxylase [Escherichia sp. 1_1_43], gi\|2268... gi\|253972141, gi... - gi\|254160240\|ref\|YP_003043348.1\| S-adenosylmethionine decarboxylase proenzyme [Escherichia coli B st... gi\|254791255, gi... - gi\|254791255\|ref\|YP_003076092.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. T... EG10962 - S-adenosylmethionine decarboxylase / S-adenosylmethionine decarboxylase, spermidine biosynthesis; tw... gi\|124530582, gi... - gi\|124530582\|ref\|ZP_01701185.1\| Adenosylmethionine decarboxylase [Escherichia coli B], gi\|124499109\|... gi\|15829378, gi\|... - gi\|15829378\|ref\|NP_308151.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. Sakai... SPED_SHIF8 - S-adenosylmethionine decarboxylase proenzyme OS=Shigella flexneri serotype 5b (strain 8401) GN=speD ... SPED_SHIBS - S-adenosylmethionine decarboxylase proenzyme OS=Shigella boydii serotype 4 (strain Sb227) GN=speD PE... gi\|21238973, gi\|... - gi\|89107001\|ref\|AP_000781.1\| S-adenosylmethionine decarboxylase [Escherichia coli str. K-12 substr. ... SPED_ECOLC - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Croo... SPED_ECOHS - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O9:H4 (strain HS) GN=speD PE=3 SV=1 gi\|75210447, gi\|... - gi\|75210447\|ref\|ZP_00710598.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli B171], ... SPED_SHIB3 - S-adenosylmethionine decarboxylase proenzyme OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS... SPED_ECO24 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN... gi\|188489604, gi... - gi\|75511995\|ref\|ZP_00734590.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli 53638],... SPED_SHISS - S-adenosylmethionine decarboxylase proenzyme OS=Shigella sonnei (strain Ss046) GN=speD PE=3 SV=1 gi\|190903623, gi... - gi\|75230518\|ref\|ZP_00716999.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli B7A], g... gi\|75258887, gi\|... - gi\|75258887\|ref\|ZP_00730277.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli E22], g... gi\|194433450, gi... - gi\|83569701\|ref\|ZP_00921151.1\| COG1586: S-adenosylmethionine decarboxylase [Shigella dysenteriae 101... gi\|189357075, gi... - gi\|189357075\|gb\|EDU75494.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC4401... gi\|194439137, gi... - gi\|83585439\|ref\|ZP_00924084.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli 101-1],... gi\|189360705, gi... - gi\|189360705\|gb\|EDU79124.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC4486... gi\|168764738, gi... - gi\|189365315\|gb\|EDU83731.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC4501... SPED_ECO5E - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=s... gi\|208820445, gi... - gi\|208820445\|ref\|ZP_03260765.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC... gi\|217325443, gi... - gi\|217325443\|ref\|ZP_03441527.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. TW... gi\|209917311, gi... - gi\|209917311\|ref\|YP_002291395.1\| S-adenosylmethionine decarboxylase [Escherichia coli SE11], gi\|2099... SPED_ECO55 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli (strain 55989 / EAEC) GN=speD PE=3 ... SPED_ECO8A - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O8 (strain IAI1) GN=speD PE=3 SV=1 SPED_ECOLU - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)... SPED_ECO7I - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=spe... SPED_ECOLI - S-adenosylmethionine decarboxylase proenzyme (EC 4.1.1.50) (AdoMetDC) (SamDC) [Contains: S-adenosylm... gi\|168782009, gi... - gi\|189000494\|gb\|EDU69480.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC4076... gi\|187767836, gi... - gi\|187767836\|gb\|EDU31680.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC4196... SPED_ECODH - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli (strain K12 / DH10B) GN=speD PE=3 S... gi\|189376386, gi... - gi\|189376386\|gb\|EDU94802.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC508]... gi\|195938198 - gi\|195938198\|ref\|ZP_03083580.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC... SPED_ECOSM - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=speD PE... gi\|208812381, gi... - gi\|208812381\|ref\|ZP_03253710.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC... gi\|208726300, gi... - gi\|208806499\|ref\|ZP_03248836.1\| S-adenosylmethionine decarboxylase [Escherichia coli O157:H7 str. EC...	0.0	[1..264]	[1..264]
SPED_SALDC - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella dublin (strain CT_02021853) GN=speD PE=3 ... SPED_SALPK - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella paratyphi A (strain AKU_12601) GN=speD PE... SPED_SALPA - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella paratyphi A GN=speD PE=3 SV=1 SPED_SALPA - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) G... SPED_SALEP - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella enteritidis PT4 (strain P125109) GN=speD ...	0.0	[1..264]	[1..264]
SPED_SHIDS - S-adenosylmethionine decarboxylase proenzyme OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=sp...	0.0	[1..264]	[1..264]
gi\|192955451, gi... - gi\|75233847\|ref\|ZP_00718317.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli E110019...	0.0	[1..264]	[1..264]
SPED_ECOUT - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli (strain UTI89 / UPEC) GN=speD PE=3 ... SPED_ECOL5 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=s... SPED_ECO45 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=speD... gi\|227884969, gi... - gi\|227884969\|ref\|ZP_04002774.1\| S-adenosylmethionine decarboxylase [Escherichia coli 83972], gi\|2278... gi\|226902188, gi... - gi\|237704276\|ref\|ZP_04534757.1\| adenosylmethionine decarboxylase [Escherichia sp. 3_2_53FAA], gi\|226... gi\|190906899, gi... - gi\|75240288\|ref\|ZP_00724235.1\| COG1586: S-adenosylmethionine decarboxylase [Escherichia coli F11], g... SPED_ECOL6 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 ... SPED_ECOL6 - S-adenosylmethionine decarboxylase proenzyme OS=Escherichia coli O6 GN=speD PE=3 SV=1	0.0	[1..264]	[1..264]
SPED_SALTY - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC... gi\|204323504, gi... - gi\|204926839\|ref\|ZP_03218041.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica su... SPED_SALNS - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella newport (strain SL254) GN=speD PE=3 SV=1 gi\|194456033, gi... - gi\|194469669\|ref\|ZP_03075653.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica su... SPED_SALSV - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella schwarzengrund (strain CVM19633) GN=speD ... SPED_SALA4 - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella agona (strain SL483) GN=speD PE=3 SV=1 SPED_SALTY - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella typhimurium GN=speD PE=3 SV=1 gi\|168230457, gi... - gi\|205334904\|gb\|EDZ21668.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica subsp.... gi\|197291807, gi... - gi\|197291807\|gb\|EDY31157.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica subsp.... gi\|168464279, gi... - gi\|195632963\|gb\|EDX51417.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica subsp.... gi\|205342412, gi... - gi\|205342412\|gb\|EDZ29176.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica subsp.... SPED_SALPB - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)... SPED_SALPB - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)... gi\|205331501, gi... - gi\|205331501\|gb\|EDZ18265.1\| S-adenosylmethionine decarboxylase proenzyme [Salmonella enterica subsp.... SPED_SALTY - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella typhimurium GN=speD PE=3 SV=1 lcl\|NC_016856.1_... - [gene=speD] [protein=S-adenosylmethionine decarboxylase] [protein_id=YP_005235828.1] [location=compl...	0.0	[1..264]	[1..264]
SPED_SALCH - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella choleraesuis (strain SC-B67) GN=speD PE=3... SPED_SALCH - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella choleraesuis GN=speD PE=3 SV=1 SPED_SALCH - S-adenosylmethionine decarboxylase proenzyme OS=Salmonella choleraesuis GN=speD PE=3 SV=1	0.0	[1..264]	[1..264]
gi\|238786760, gi... - gi\|77976065\|ref\|ZP_00831598.1\| COG1586: S-adenosylmethionine decarboxylase [Yersinia frederiksenii A...	0.0	[1..264]	[1..264]
gi\|166204721, gi... - gi\|166214090\|ref\|ZP_02240125.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis biovar... gi\|167399403, gi... - gi\|167399403\|ref\|ZP_02304927.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis biovar... gi\|167420698, gi... - gi\|167420698\|ref\|ZP_02312451.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis biovar... gi\|167057631, gi... - gi\|167423461\|ref\|ZP_02315214.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis biovar... SPED_YERPY - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pseudotuberculosis serotype O:3 (strain YPI... SPED_YERPB - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pseudotuberculosis serotype IB (strain PB1/... gi\|22124687, gi\|... - gi\|22124687\|ref\|NP_668110.1\| S-adenosylmethionine decarboxylase [Yersinia pestis KIM], gi\|21957500\|g... gi\|218930429, gi... - gi\|218930429\|ref\|YP_002348304.1\| S-adenosylmethionine decarboxylase [Yersinia pestis CO92], gi\|16123... SPED_YERPN - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=spe... gi\|45440133, gi\|... - gi\|45440133\|ref\|NP_991672.1\| S-adenosylmethionine decarboxylase [Yersinia pestis biovar Microtus str... SPED_YERPE - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pestis GN=speD PE=3 SV=1 gi\|165936771, gi... - gi\|89104446\|ref\|ZP_01176989.1\| COG1586: S-adenosylmethionine decarboxylase [Yersinia pestis biovar O... gi\|165922459, gi... - gi\|165925847\|ref\|ZP_02221679.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis biovar... gi\|229899616, gi... - gi\|229899616\|ref\|ZP_04514757.1\| S-adenosylmethionine decarboxylase [Yersinia pestis biovar Orientali... SPED_YERPA - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=speD... gi\|165990930, gi... - gi\|166010023\|ref\|ZP_02230921.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis biovar... gi\|229700604, gi... - gi\|229896530\|ref\|ZP_04511698.1\| S-adenosylmethionine decarboxylase [Yersinia pestis Pestoides A], gi... gi\|229839051, gi... - gi\|229839051\|ref\|ZP_04459210.1\| S-adenosylmethionine decarboxylase [Yersinia pestis biovar Orientali... SPED_YERPG - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pestis bv. Antiqua (strain Angola) GN=speD ... SPED_YERPP - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pestis (strain Pestoides F) GN=speD PE=3 SV... SPED_YERP3 - S-adenosylmethionine decarboxylase proenzyme OS=Yersinia pseudotuberculosis serotype O:1b (strain IP... gi\|149289182, gi... - gi\|153997545\|ref\|ZP_02022645.1\| S-adenosylmethionine decarboxylase proenzyme [Yersinia pestis CA88-4...	0.0	[1..264]	[1..264]
gi\|77957549, gi\|... - gi\|77957549\|ref\|ZP_00821602.1\| COG1586: S-adenosylmethionine decarboxylase [Yersinia bercovieri ATCC...	0.0	[1..264]	[1..264]

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Predicted Domain #1

Region A:
Residues: [1-169]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKKLKLHGFN NLTKSLSFCI YDICYAKTAE ERDGYIAYID ELYNANRLTE ILSETCSIIG  60
   61 ANILNIARQD YEPQGASVTI LVSEEPIDPK LIDQTEHPGP LPETVVAHLD KSHICVHTYP 120
  121 ESHPEGGLCT FRADIEVSTC GVISPLKALN YLIHQLESDI VTIDYRVRG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	27.0
Match:	1vr7A
Description:	Crystal structure of S-adenosylmethionine decarboxylase proenzyme (TM0655) from THERMOTOGA MARITIMA at 1.2 A resolution
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
adenosylmethionine decarboxylase activity	6.84247797666468	bayes_pls_golite062009
carbon-carbon lyase activity	3.32152822935886	bayes_pls_golite062009
carboxy-lyase activity	2.72149419399869	bayes_pls_golite062009
catalytic activity	1.62887824627302	bayes_pls_golite062009
lyase activity	1.49916840552571	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [170-264]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FTRDVNGMKH FIDHEINSIQ NFMSEDMKSL YDMVDVNVYQ ENIFHTKMLL KEFDLKHYMF  60
   61 HTKPEDLTET ERQQITAALW KEMREIYYGR NISAV

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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: