YRC Public Data Repository - Protein Structure Prediction

Protein:	NADK_SHIB3
Organism:	Shigella boydii CDC 3083-94
Length:	292 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 NADK_SHIB3.

Description	E-value	Query Range	Subject Range
PPNK_ERWCT - Probable inorganic polyphosphate/ATP-NAD kinase OS=Erwinia carotovora subsp. atroseptica GN=ppnK PE=... NADK_PECAS - NAD kinase OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN=nadK PE=3 SV=1	346.0	[0..1]	[292..1]
NADK_ECO27 - NAD kinase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nadK PE=3 SV=1 NADK_ECOL6 - NAD kinase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=nadK PE=3 SV=1 NADK_ECO45 - NAD kinase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=nadK PE=3 SV=1 NADK_ECO81 - NAD kinase OS=Escherichia coli O81 (strain ED1a) GN=nadK PE=3 SV=1 NADK_ECOL5 - NAD kinase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=nadK PE=3 SV=1 gi\|190908335, gi... - gi\|191171401\|ref\|ZP_03032950.1\| NAD(+) kinase [Escherichia coli F11], gi\|190908335\|gb\|EDV67925.1\| NA... PPNK_ECOL6 - Probable inorganic polyphosphate/ATP-NAD kinase OS=Escherichia coli O6 GN=ppnK PE=3 SV=1 NADK_ECOK1 - NAD kinase OS=Escherichia coli O1:K1 / APEC GN=nadK PE=3 SV=1 gi\|237706798, gi... - gi\|237706798\|ref\|ZP_04537279.1\| inorganic polyphosphate/ATP-NAD kinase [Escherichia sp. 3_2_53FAA], ... NADK_ECOUT - NAD kinase OS=Escherichia coli (strain UTI89 / UPEC) GN=nadK PE=3 SV=1 sp\|B7UH63\|PPNK_ECO27 - Probable inorganic polyphosphate/ATP-NAD kinase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC)...	345.0	[0..1]	[292..1]
NADK_SHIBS - NAD kinase OS=Shigella boydii serotype 4 (strain Sb227) GN=nadK PE=3 SV=1	345.0	[0..1]	[292..1]
NADK_SHIDS - NAD kinase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=nadK PE=3 SV=1	342.0	[0..1]	[292..1]
gi\|194471350, gi... - gi\|194471350\|ref\|ZP_03077334.1\| NAD(+) kinase [Salmonella enterica subsp. enterica serovar Kentucky ... PPNK_SALTY - Probable inorganic polyphosphate/ATP-NAD kinase OS=Salmonella typhimurium GN=ppnK PE=1 SV=1 PPNK_SALPA - Probable inorganic polyphosphate/ATP-NAD kinase OS=Salmonella paratyphi A GN=ppnK PE=3 SV=1 NADK_SALHS - NAD kinase OS=Salmonella heidelberg (strain SL476) GN=nadK PE=3 SV=1 NADK_SALNS - NAD kinase OS=Salmonella newport (strain SL254) GN=nadK PE=3 SV=1 gi\|205340652, gi... - gi\|205340652\|gb\|EDZ27416.1\| NAD(+) kinase [Salmonella enterica subsp. enterica serovar Weltevreden s... gi\|213424857 - gi\|213424857\|ref\|ZP_03357607.1\| inorganic polyphosphate/ATP-NAD kinase [Salmonella enterica subsp. e... NADK_SALPK - NAD kinase OS=Salmonella paratyphi A (strain AKU_12601) GN=nadK PE=3 SV=1 gi\|197264838, gi... - gi\|197264838\|ref\|ZP_03164912.1\| NAD(+) kinase [Salmonella enterica subsp. enterica serovar Saintpaul... NADK_SALA4 - NAD kinase OS=Salmonella agona (strain SL483) GN=nadK PE=3 SV=1 PPNK_SALTI - Probable inorganic polyphosphate/ATP-NAD kinase OS=Salmonella typhi GN=ppnK PE=3 SV=1 NADK_SALTI - NAD kinase OS=Salmonella typhi GN=nadK PE=3 SV=1 PPNK_SALTY - Probable inorganic polyphosphate/ATP-NAD kinase OS=Salmonella typhimurium GN=ppnK PE=1 SV=1 NADK_SALTY - NAD kinase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=nadK PE=1 SV=1 gi\|205336464, gi... - gi\|205336464\|gb\|EDZ23228.1\| NAD(+) kinase [Salmonella enterica subsp. enterica serovar Heidelberg st... gi\|205331820, gi... - gi\|205331820\|gb\|EDZ18584.1\| NAD(+) kinase [Salmonella enterica subsp. enterica serovar Kentucky str.... gi\|29138639, gi\|... - gi\|29143006\|ref\|NP_806348.1\| inorganic polyphosphate/ATP-NAD kinase [Salmonella enterica subsp. ente... gi\|205329350, gi... - gi\|205329350\|gb\|EDZ16114.1\| NAD(+) kinase [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- ... gi\|16761535 - gi\|16761535\|ref\|NP_457152.1\| inorganic polyphosphate/ATP-NAD kinase [Salmonella enterica subsp. ente... lcl\|NC_016856.1_... - [gene=ppnK] [protein=inorganic polyphosphate/ATP-NAD kinase] [protein_id=YP_005238807.1] [location=2... gi\|238909525 - gi\|238909525\|ref\|ZP_04653362.1\| inorganic polyphosphate/ATP-NAD kinase [Salmonella enterica subsp. e... NADK_SALPA - NAD kinase OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=nadK PE=3 SV=1 gi\|213999740 - gi\|213999740\|ref\|ZP_03410475.1\| inorganic polyphosphate/ATP-NAD kinase [Salmonella enterica subsp. e... gi\|213855293 - gi\|213855293\|ref\|ZP_03383533.1\| inorganic polyphosphate/ATP-NAD kinase [Salmonella enterica subsp. e...	341.0	[0..1]	[292..1]
gi\|238714882, gi... - gi\|77958603\|ref\|ZP_00822634.1\| COG0061: Predicted sugar kinase [Yersinia bercovieri ATCC 43970], gi\|...	341.0	[0..2]	[292..3]
gi\|208727793, gi... - gi\|208807992\|ref\|ZP_03250329.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4206], gi\|208727793\|g... gi\|208812883, gi... - gi\|208812883\|ref\|ZP_03254212.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4045], gi\|208734160\|g... gi\|208740357, gi... - gi\|208820234\|ref\|ZP_03260554.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4042], gi\|208740357\|g... gi\|254794560, gi... - gi\|254794560\|ref\|YP_003079397.1\| ATP-NAD kinase [Escherichia coli O157:H7 str. TW14359], gi\|25459396... NADK_ECO5E - NAD kinase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=nadK PE=3 SV=1 gi\|168778592, gi... - gi\|189003347\|gb\|EDU72333.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4076], gi\|168778592\|ref\|Z... gi\|189370860, gi... - gi\|189370860\|gb\|EDU89276.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC869], gi\|168789517\|ref\|ZP... gi\|189377155, gi... - gi\|189377155\|gb\|EDU95571.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC508], gi\|168800494\|ref\|ZP... gi\|195939666 - gi\|195939666\|ref\|ZP_03085048.1\| inorganic polyphosphate/ATP-NAD kinase [Escherichia coli O157:H7 str... gi\|168755357, gi... - gi\|189357319\|gb\|EDU75738.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4401], gi\|168755357\|ref\|Z... gi\|189367220, gi... - gi\|189367220\|gb\|EDU85636.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4501], gi\|168762407\|ref\|Z... gi\|168768702, gi... - gi\|189362032\|gb\|EDU80451.1\| NAD(+) kinase [Escherichia coli O157:H7 str. EC4486], gi\|168768702\|ref\|Z... gi\|25305173, gi\|... - pir\|\|E91063 NAD kinase (EC 2.7.1.23) - Escherichia coli (strain O157:H7, substrain RIMD 0509952), p... gi\|12517039, gi\|... - gi\|15803135\|ref\|NP_289167.1\| inorganic polyphosphate/ATP-NAD kinase [Escherichia coli O157:H7 EDL933... gi\|13362948, gi\|... - gi\|15832731\|ref\|NP_311504.1\| inorganic polyphosphate/ATP-NAD kinase [Escherichia coli O157:H7 str. S... NADK_ECO57 - NAD kinase OS=Escherichia coli O157:H7 GN=nadK PE=3 SV=1 gi\|217319434, gi... - gi\|217327067\|ref\|ZP_03443150.1\| NAD(+) kinase [Escherichia coli O157:H7 str. TW14588], gi\|217319434\|...	341.0	[0..1]	[292..1]
gi\|77963361, gi\|... - gi\|77963361\|ref\|ZP_00827171.1\| COG0061: Predicted sugar kinase [Yersinia mollaretii ATCC 43969], gi\|...	341.0	[0..2]	[292..3]
gi\|238726851, gi... - gi\|77978424\|ref\|ZP_00833853.1\| COG0061: Predicted sugar kinase [Yersinia intermedia ATCC 29909], gi\|...	340.0	[0..2]	[292..3]
gi\|238723826, gi... - gi\|77974738\|ref\|ZP_00830277.1\| COG0061: Predicted sugar kinase [Yersinia frederiksenii ATCC 33641], ...	340.0	[0..2]	[292..3]

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Predicted Domain #1

Region A:
Residues: [1-292]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNNHFKCIGI VGHPRHPTAL TTHEMLYRWL CTKGYEVIVE QQIAHELQLK NVKTGTLAEI  60
   61 GQLADLAVVV GGDGNMLGAA RTLARYDIKV IGINRGNLGF LTDLDPDNAQ QQLADVLEGH 120
  121 YISEKRFLLE AQVCQQDCQK RISTAINEVV LHPGKVAHMI EFEVYIDEIF AFSQRSDGLI 180
  181 ISTPTGSTAY SLSAGGPILT PSLDAITLVP MFPHTLSARP LVINSSSTIR LRFSHRRNDL 240
  241 EISCDSQIAL PIQEGEDVLI RRCDYHLNLI HPKDYSYFNT LSTKLGWSKK LF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	94.0
Match:	2an1A
Description:	Structural Genomics, The crystal structure of a putative kinase from Salmonella typhimurim LT2
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