YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24051992, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	287 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|24051992, gi|....

Description	E-value	Query Range	Subject Range
PDXY_SHIDS - Pyridoxal kinase PdxY OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=pdxY PE=3 SV=3	209.0	[0..1]	[287..1]
gi\|218558507, gi... - gi\|218558507\|ref\|YP_002391420.1\| pyridoxamine kinase [Escherichia coli S88], gi\|218365276\|emb\|CAR029... gi\|218689583, gi... - gi\|218689583\|ref\|YP_002397795.1\| pyridoxamine kinase [Escherichia coli ED1a], gi\|218427147\|emb\|CAR08... gi\|75238803 - gi\|75238803\|ref\|ZP_00722787.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli F... gi\|115512946, gi... - gi\|117623822\|ref\|YP_852735.1\| pyridoxamine kinase [Escherichia coli APEC O1], gi\|115512946\|gb\|ABJ010... PDXY_ECOUT - Pyridoxal kinase PdxY OS=Escherichia coli (strain UTI89 / UPEC) GN=pdxY PE=3 SV=3 PDXY_ECOL5 - Pyridoxal kinase PdxY OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=pdxY PE=3 SV=2 gi\|226900337, gi... - gi\|237705580\|ref\|ZP_04536061.1\| pyridoxine kinase [Escherichia sp. 3_2_53FAA], gi\|226900337\|gb\|EEH86...	209.0	[0..1]	[287..1]
gi\|227885947, gi... - gi\|227885947\|ref\|ZP_04003752.1\| pyridoxamine kinase [Escherichia coli 83972], gi\|227837126\|gb\|EEJ475... PDXY_ECOL6 - Pyridoxal kinase PdxY OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=pdxY PE=3 SV... PDXY_ECOL6 - Pyridoxamine kinase OS=Escherichia coli O6 GN=pdxY PE=3 SV=3	208.0	[0..1]	[287..1]
gi\|218705137, gi... - gi\|218705137\|ref\|YP_002412656.1\| pyridoxamine kinase [Escherichia coli UMN026], gi\|218432234\|emb\|CAR... gi\|254592653, gi... - gi\|254793253\|ref\|YP_003078090.1\| pyridoxal kinase 2/pyridoxine kinase [Escherichia coli O157:H7 str.... gi\|13361812, gi\|... - gi\|15831599\|ref\|NP_310372.1\| pyridoxamine kinase [Escherichia coli O157:H7 str. Sakai], gi\|13361812\|... gi\|194434304, gi... - gi\|83569259\|ref\|ZP_00920716.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Shigella dysenteri... gi\|25326117, gi\|... - pir\|\|E85770 pyridoxal kinase 2 / pyridoxine kinase [imported] - Escherichia coli (strain O157:H7, su... gi\|15802050, gi\|... - gi\|15802050\|ref\|NP_288072.1\| pyridoxamine kinase [Escherichia coli O157:H7 EDL933], gi\|12515628\|gb\|A... PDXY_ECO57 - Pyridoxal kinase PdxY OS=Escherichia coli O157:H7 GN=pdxY PE=3 SV=3 gi\|218369781, gi... - gi\|218699795\|ref\|YP_002407424.1\| pyridoxamine kinase [Escherichia coli IAI39], gi\|218369781\|emb\|CAR1... gi\|195939026 - gi\|195939026\|ref\|ZP_03084408.1\| pyridoxamine kinase [Escherichia coli O157:H7 str. EC4024]	208.0	[0..1]	[287..1]
gi\|53732992 - gi\|53732992\|ref\|ZP_00349624.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Haemophilus influe... gi\|53733247 - gi\|53733247\|ref\|ZP_00349671.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Haemophilus influe... PDXY_HAEIE - Pyridoxal kinase PdxY OS=Haemophilus influenzae (strain PittEE) GN=pdxY PE=3 SV=1	208.0	[0..2]	[287..1]
PDXY_HAEIN - Pyridoxal kinase PdxY OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=pdxY ... PDXY_HAEIN - Pyridoxamine kinase OS=Haemophilus influenzae GN=pdxY PE=3 SV=1	207.0	[0..2]	[287..1]
gi\|218554204, gi... - gi\|218554204\|ref\|YP_002387117.1\| pyridoxamine kinase [Escherichia coli IAI1], gi\|218360972\|emb\|CAQ98... gi\|169889135, gi... - gi\|170081300\|ref\|YP_001730620.1\| pyridoxal kinase 2/pyridoxine kinase [Escherichia coli str. K-12 su... EG13940 - pyridoxamine kinase / Pyridoxamine kinase gi\|218351931, gi... - gi\|218695199\|ref\|YP_002402866.1\| pyridoxamine kinase [Escherichia coli 55989], gi\|218351931\|emb\|CAU9... gi\|1742702, gi\|8... - gi\|89108478\|ref\|AP_002258.1\| pyridoxal kinase 2/pyridoxine kinase [Escherichia coli str. K-12 substr... PDXY_ECOLI - (P77150) Pyridoxamine kinase (EC 2.7.1.35) (PM kinase) gi\|238863349, gi... - gi\|238900852\|ref\|YP_002926648.1\| pyridoxal kinase 2/pyridoxine kinase [Escherichia coli BW2952], gi\|... gi\|75190676 - gi\|75190676\|ref\|ZP_00703943.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli E... gi\|251785094, gi... - gi\|251785094\|ref\|YP_002999398.1\| hypothetical protein B21_01596 [Escherichia coli BL21], gi\|24237736... EG13940 - pyridoxamine kinase / Pyridoxamine kinase gi\|75195716 - gi\|75195716\|ref\|ZP_00705786.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli H... gi\|253973599, gi... - gi\|254161698\|ref\|YP_003044806.1\| pyridoxine kinase [Escherichia coli B str. REL606], gi\|253973599\|gb... gi\|75212973 - gi\|75212973\|ref\|ZP_00712971.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli B... gi\|254288487, gi... - gi\|254288487\|ref\|YP_003054235.1\| pyridoxine kinase [Escherichia coli BL21(DE3)], gi\|253977794\|gb\|ACT... gi\|75230915 - gi\|75230915\|ref\|ZP_00717364.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli B... gi\|75257055 - gi\|75257055\|ref\|ZP_00728615.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli E... gi\|75512931 - gi\|75512931\|ref\|ZP_00735412.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli 5... PDXY_SHIBS - Pyridoxal kinase PdxY OS=Shigella boydii serotype 4 (strain Sb227) GN=pdxY PE=3 SV=3 gi\|83587971 - gi\|83587971\|ref\|ZP_00926597.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli 1...	206.0	[0..1]	[287..1]
PDXY_SALTY - Pyridoxamine kinase OS=Salmonella typhimurium GN=pdxY PE=3 SV=1 lcl\|NC_016856.1_... - [gene=pdxY] [protein=pyridoxamine kinase] [protein_id=YP_005237320.1] [location=1534797..1535657] PDXY_SALCH - Pyridoxal kinase PdxY OS=Salmonella choleraesuis (strain SC-B67) GN=pdxY PE=3 SV=1 PDXY_SALTY - Pyridoxamine kinase OS=Salmonella typhimurium GN=pdxY PE=3 SV=1 PDXY_SALCH - Pyridoxamine kinase OS=Salmonella choleraesuis GN=pdxY PE=3 SV=1 gi\|224584041, gi... - gi\|224584041\|ref\|YP_002637839.1\| pyridoxine kinase [Salmonella enterica subsp. enterica serovar Para... gi\|197240474, gi... - gi\|197262219\|ref\|ZP_03162293.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Saintp... gi\|200390381, gi... - gi\|200390381\|ref\|ZP_03216992.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Vircho... gi\|194443934, gi... - gi\|194443934\|ref\|YP_002040699.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Newpo... gi\|194734833, gi... - gi\|194734833\|ref\|YP_002114462.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Schwa... gi\|197291110, gi... - gi\|197291110\|gb\|EDY30463.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Schwarzeng... gi\|168463139, gi... - gi\|195634119\|gb\|EDX52471.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Newport st... gi\|205323541, gi... - gi\|205323541\|gb\|EDZ11380.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar Saintpaul ... gi\|205327833, gi... - gi\|205327833\|gb\|EDZ14597.1\| pyridoxal kinase [Salmonella enterica subsp. enterica serovar 4,[5],12:i... PDXY_SALCH - Pyridoxamine kinase OS=Salmonella choleraesuis GN=pdxY PE=3 SV=1 PDXY_SALTY - Pyridoxal kinase PdxY OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=pdxY PE=3 S... gi\|161363496, gi... - gi\|161614132\|ref\|YP_001588097.1\| pyridoxamine kinase [Salmonella enterica subsp. enterica serovar Pa...	206.0	[0..2]	[287..1]
gi\|75234949 - gi\|75234949\|ref\|ZP_00719228.1\| COG2240: Pyridoxal/pyridoxine/pyridoxamine kinase [Escherichia coli E...	206.0	[0..1]	[287..1]
PDXY_ECOUT - Pyridoxamine kinase - Escherichia coli (strain UTI89 / UPEC) gi\|190906289, gi... - gi\|191173447\|ref\|ZP_03034975.1\| pyridoxal kinase [Escherichia coli F11], gi\|190906289\|gb\|EDV65900.1\|... PDXY_ECOL5 - Pyridoxamine kinase - Escherichia coli O6:K15:H31 (strain 536 / UPEC)	205.0	[0..2]	[287..1]

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Predicted Domain #1

Region A:
Residues: [1-287]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMKNILAIQS HVVYGHAGNS AAEFPMRRLG ANVWPLNTVQ FSNHTQYGKW TGCVMPPSHL  60
   61 TEIVQGIAAI DKLHTCDAVL SGYLGSAEQG EHILGIVRQV KAANPQAKYF CDPVMGHPEK 120
  121 GCIVAPGVAE FHVRHGLPAS DIIAPNLVEL EILCEHAVNN VEEAVLAARE LIEQGPQIVL 180
  181 VKHLARAGYS RDRFEMLLVT ADEVWHISRP LVDFGMRQPV GVGDVTSGLL LVKLLQGATL 240
  241 QEALEHVTAA VYEIMVTTKA MQEYELQVVA AQDRIAKPEH YFSATKL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.154902
Match:	1td2A
Description:	Crystal Structure of the PdxY Protein from Escherichia coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
pyridoxal kinase activity	2.62798458074822	bayes_pls_golite062009
lithium ion binding	2.13277680045067	bayes_pls_golite062009
phosphomethylpyrimidine kinase activity	2.12104666683074	bayes_pls_golite062009
kinase activity	1.97263499488006	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.9404172142043	bayes_pls_golite062009
catalytic activity	1.74474587246986	bayes_pls_golite062009
sodium ion binding	1.68674446261009	bayes_pls_golite062009
transferase activity	1.45532444493305	bayes_pls_golite062009
potassium ion binding	1.18018952731159	bayes_pls_golite062009
alkali metal ion binding	1.18018952731159	bayes_pls_golite062009
binding	0.633920734219964	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.562479151224388	bayes_pls_golite062009
nucleic acid binding	0.36291827344745	bayes_pls_golite062009
carbohydrate kinase activity	0.279985540213025	bayes_pls_golite062009
transcription regulator activity	0.17505963559104	bayes_pls_golite062009
protein binding	0.140211399655759	bayes_pls_golite062009
pyridoxal binding	0.00261860000277619	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: