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Rule : Pyridoxine 5'-phosphate synthase (PDXJ)

Rule Description

ID NRULE_0212
Rule name PDXJ
Created 2013-05-09
Protein name
Protein name
Full
Pyridoxine 5'-phosphate synthase
Short
PNP synthase
EC
EC 2.6.99.2
Gene name pdxJ
Rule Trigger HAMAP; MF_00279; hit=1
Cross Reference
Gene Ontology
GO
GO:0005829, C:cytosol, IDA:UniProtKB
GO:0033856, F:pyridoxine 5'-phosphate synthase activity, IDA:EcoCyc
GO:0008615, P:pyridoxine biosynthetic process, IMP:EcoliWiki
Phylogenomic databases
eggNOG
COG0854, -
HOGENOM
HOG000258095, -
KO
K03474, -
ProtClustDB
PRK05265, -
Enzyme and pathway databases
BioCyc
MetaCyc:PDXJ-MONOMER, -
UniPathway
UPA00244, UER00313
Family and domain databases
HAMAP
MF_00279, PdxJ, 1, -
InterPro
IPR013785, Aldolase_TIM
IPR004569, PyrdxlP_synth_PdxJ
Pfam
PF03740, PdxJ, 1
TIGRFAMs
TIGR00559, pdxJ, 1
Feature Not assigned
General annotation
Function
Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate (By similarity)
Catalytic activity
1-deoxy-D-xylulose 5-phosphate + 3-amino-2- oxopropyl phosphate = pyridoxine 5'-phosphate + phosphate + 2 H(2)O
Pathway
Cofactor biosynthesis; pyridoxine 5'-phosphate biosynthesis; pyridoxine 5'-phosphate from D-erythrose 4- phosphate: step 5/5
Subunit structure
Homooctamer; tetramer of dimers (By similarity)
Subcellular location
Cytoplasm (By similarity)
Sequence similarities
Belongs to the PNP synthase family
Reference
P0A794 Escherichia coli (strain K12).
1537799
Locating essential Escherichia coli genes by using mini-Tn10 transposons: the pdxJ operon. (J Bacteriol. 1992)
1537800
Suppression of insertions in the complex pdxJ operon of Escherichia coli K-12 by lon and other mutations. (J Bacteriol. 1992)
9278503
The complete genome sequence of Escherichia coli K-12. (Science. 1997)
16738553
Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110. (Mol Syst Biol. 2006)
10225425
Vitamin B6 biosynthesis: formation of pyridoxine 5'-phosphate from 4-(phosphohydroxy)-L-threonine and 1-deoxy-D-xylulose-5-phosphate by PdxA and PdxJ protein. (FEBS Lett. 1999)



Related Function

Function name
Vitamin B6 biosynthesis (PdxA/PdxJ pathway)

CDS

Data Download
Scientific name NBRC No. CDS Product name
Acaryochloris marina102967AM1_2758pyridoxal phosphate biosynthetic protein PdxJ
Acetobacter aceti14818AaceN1_010100003498pyridoxine 5'-phosphate synthase
Acetobacter pasteurianus105190APA32_21790Pyridoxal phosphate biosynthetic protein PdxJ
Acetobacter pasteurianus101655APT_2444pyridoxal phosphate biosynthetic protein PdxJ
Acetobacter tropicalis101654ATPR_2629pyridoxal phosphate biosynthetic protein PdxJ
Acidiphilium multivorum100883ACMV_29550pyridoxal phosphate biosynthetic protein PdxJ
Acidithiobacillus ferrooxidansLferr_1124pyridoxal phosphate biosynthetic protein PdxJ
Acinetobacter radioresistens102413ACRAD_02_00200pyridoxine 5'-phosphate synthase
Acinetobacter sp.100985ACT4_005_00490pyridoxine 5'-phosphate synthase
Alteromonas macleodii102226MASE_03230pyridoxine 5'-phosphate synthase
Aquifex aeolicusaq_1423pyridoxal phosphate synthetase
Aquimarina agarilytica107695AagaZ_020100009226pyridoxine 5'-phosphate synthase
Azorhizobium caulinodans14845AZC_2001pyridoxine 5'-phosphate synthase
Bacteroides vulgatus14291BVU_0477pyridoxal phosphate biosynthetic protein pdxJ
Balneola vulgarisB155_RS0105405pyridoxine 5'-phosphate synthase
Bergeyella zoohelcum16014HMPREF9699_00873pyridoxine 5'-phosphate synthase
Bradyrhizobium diazoefficiens14792bll5064pyridoxal phosphate biosynthetic protein
Brevundimonas diminuta12697BDIM_17790pyridoxine 5'-phosphate synthase
Brevundimonas subvibrioides16000Bresu_1965pyridoxal phosphate biosynthetic protein PdxJ
Calditerrivibrio nitroreducens101217Calni_1440pyridoxine 5'-phosphate synthase
Caulobacter segnis15250Cseg_2647pyridoxal phosphate biosynthetic protein PdxJ
Cellulophaga lytica14961Celly_1941Pyridoxine 5'-phosphate synthase
Chitinispirillum alkaliphilumCHISP_2918Pyridoxine 5'-phosphate synthase
Chitinivibrio alkaliphilusCALK_0586pyridoxine 5'-phosphate synthase
Chitinophaga pinensis15968Cpin_2038pyridoxal phosphate biosynthetic protein PdxJ
Chlorobaculum tepidum103806CT0331pyridoxal phosphate biosynthetic protein PdxJ
Chlorobium limicola103803Clim_1733pyridoxal phosphate biosynthetic protein PdxJ
Chromobacterium violaceum12614CV_2070pyridoxal phosphate biosynthetic protein pdxJ
Chryseobacterium gleum15054HMPREF0204_12495pyridoxine 5'-phosphate synthase
Chrysiogenes arsenatisP304_RS0106060pyridoxine 5'-phosphate synthase
Chthoniobacter flavusCfE428DRAFT_2062pyridoxal phosphate biosynthetic protein PdxJ
Congregibacter litoralis104960KT71_10744pyridoxine 5''-phosphate synthase
Coraliomargarita akajimensisCaka_1834pyridoxal phosphate biosynthetic protein PdxJ
Cupriavidus metallidurans102507Rmet_2415pyridoxine 5'-phosphate synthase
Cystobacter fuscus100088D187_007111Pyridoxine 5'-phosphate synthase
Cytophaga hutchinsonii15051CHU_3403pyridoxine 5'-phosphate synthase
Deferribacter desulfuricans101012DEFDS_1034pyridoxine 5-phosphate synthase
Desulfovibrio magneticus104933DMR_27540pyridoxal phosphate biosynthetic protein PdxJ
Desulfovibrio vulgaris subsp. vulgaris104121DVU_1908pyridoxal phosphate biosynthetic protein PdxJ
Edwardsiella tarda105688ET1_12_00960pyridoxine 5'-phosphate synthase
Elusimicrobium minutumEmin_1320Putative pyridoxine 5 phosphate synthase
Endomicrobium proavitumEpro_0863pyridoxine 5-phosphate synthase
Enterobacter aerogenes13534EAE_00915pyridoxine 5'-phosphate synthase
Enterobacter cloacae subsp. cloacae13535ECL_03902pyridoxine 5-phosphate synthase
Enterobacter hormaechei105718HMPREF9086_3413pyridoxal phosphate biosynthetic protein PdxJ
Escherichia coli3972EcolC_1113pyridoxal phosphate biosynthetic protein PdxJ
Escherichia coli13500WFL_13665pyridoxine 5'-phosphate synthase
Escherichia coli12713Y75_2557pyridoxine 5'-phosphate synthase
Escherichia fergusonii102419EFER_0510pyridoxine 5'-phosphate synthase
Escherichia hermannii105704EH105704_18_00390pyridoxine 5'-phosphate synthase
Fibrobacter succinogenesFisuc_0671pyridoxal phosphate biosynthetic protein PdxJ
Fischerella sp.PCC9339_RS0131995pyridoxine 5'-phosphate synthase
Flavobacterium johnsoniae14942Fjoh_1695pyridoxal phosphate biosynthetic protein PdxJ
Flexibacter litoralis15988Fleli_3387pyridoxine 5'-phosphate synthase
Fluviicola taffensis106335Fluta_0118pyridoxine 5'-phosphate synthase
Gemmata obscuriglobusGEMOB_RS22270pyridoxine 5'-phosphate synthase
Gemmatimonas aurantiaca100505GAU_1247pyridoxal phosphate biosynthetic protein PdxJ
Gloeobacter violaceusgll0103pyridoxal phosphate biosynthetic protein
Gluconacetobacter hansenii14816GXY_01308pyridoxine 5'-phosphate synthase
Gluconobacter frateurii101659GfraN1_010100003108pyridoxine 5'-phosphate synthase
Halomonas elongata15536HELO_3017pyridoxal phosphate biosynthetic protein PdxJ
Holophaga foetidaHOLFODRAFT_RS0215935pyridoxine 5'-phosphate synthase
Hylemonella gracilis14920HGR_06041pyridoxine 5'-phosphate synthase
Hyphomonas neptunium14232HNE_0875pyridoxal phosphate biosynthetic protein PdxJ
Ignavibacterium album101810IALB_2176Pyridoxal phosphate biosynthesis protein
Klebsiella pneumoniae14438KPR_1384
Klebsiella pneumoniae subsp. rhinoscleromatis105682HMPREF0484_0567pyridoxine 5'-phosphate synthase
Kordia algicida100336KAOT1_13397pyridoxal phosphate biosynthetic protein
Labrenzia aggregata16684SIAM614_19094pyridoxal phosphate biosynthetic protein
Leadbetterella byssophila106382Lbys_3509pyridoxine 5'-phosphate synthase
Lentisphaera araneosaLNTAR_18945pyridoxal phosphate biosynthetic protein
Leptospira interrogansLA_1514pyridoxal phosphate biosynthetic protein PdxJ
Magnetospirillum gryphiswaldense15271MGR_3081Pyridoxal phosphate biosynthetic protein PdxJ
Magnetospirillum magnetotacticum15272Magn03008839COG0854: Pyridoxal phosphate biosynthesis protein
Marinomonas mediterranea103028Marme_1494pyridoxal phosphate biosynthetic protein PdxJ
Mariprofundus ferrooxydansSPV1_04018pyridoxal phosphate biosynthetic protein
Marivirga tractuosa15989Ftrac_1784pyridoxine 5'-phosphate synthase
Methylacidiphilum infernorumMinf_0766Pyridoxal phosphate biosynthesis protein
Methylobacterium radiotolerans15690Mrad2831_3458pyridoxal phosphate biosynthetic protein PdxJ
Microscilla marina16560M23134_00258pyridoxal phosphate biosynthetic protein PdxJ
Myroides odoratus14945Myrod_2306pyridoxine 5'-phosphate synthase
Niastella koreensis106392Niako_0353pyridoxine 5'-phosphate synthase
Nitrosomonas europaea14298NE2322Pyridoxal phosphate biosynthetic protein PdxJ
Nitrospina gracilisNITGR_700028Pyridoxine 5'-phosphate synthase
Nostoc sp.all0218 pdxJ gene product
Ochrobactrum anthropi15819Oant_1810Pyridoxal phosphate biosynthetic protein PdxJ
Ochrobactrum intermedium15820OINT_1001507Pyridoxine 5'-phosphate synthase
Pedobacter heparinus12017Phep_3677pyridoxal phosphate biosynthetic protein PdxJ
Pedobacter saltans100064Pedsa_2375pyridoxine 5'-phosphate synthase
Pelobacter carbinolicus103641Pcar_1002pyridoxine-5'-phosphate synthase
Pelobacter propionicus103807Ppro_2257pyridoxine 5'-phosphate synthase
Phaeobacter gallaeciensis16654PGA1_c01030pyridoxine 5'-phosphate synthase PdxJ
Photobacterium damselae subsp. damselae corrig.15633VDA_001265pyridoxine 5'-phosphate synthase
Phycisphaera mikurensis102666PSMK_20180pyridoxine 5'-phosphate synthase
Planctomyces brasiliensis103401Plabr_0023pyridoxine 5'-phosphate synthase
Prochlorococcus marinus subsp. marinusPro_1089Pyridoxal phosphate biosynthesis protein
Proteus mirabilis105697HMPREF0693_1534pyridoxine 5'-phosphate synthase
Providencia alcalifaciens105687PROVALCAL_01725pyridoxine 5'-phosphate synthase
Pseudomonas putida100650PP_1436pyridoxal phosphate biosynthetic protein PdxJ
Pseudomonas stutzeri14165PSTAB_1142pyridoxine 5'-phosphate synthase
Rahnella aquatilis105701Rahaq2_3509pyridoxine 5''-phosphate synthase
Rhizobium etli15573RHE_CH02769pyridoxal phosphate biosynthetic (pyridoxine 5`-phosphate synthase) protein
Rhizobium sp.101917NGR_c19930pyridoxal phosphate biosynthetic protein PdxJ
Rhizobium tropici15247RTCIAT899_CH10960pyridoxal phosphate biosynthesis protein PdxJ
Rhodobacter capsulatus16581RCAP_rcc03315pyridoxine 5'-phosphate synthase
Rhodobacter sphaeroides12203RSP_1672PNP synthase, pyridoxal phosphate biosynthetic protein PdxJ
Roseobacter denitrificans15277RD1_1362pyridoxal phosphate biosynthetic protein PdxJ
Roseobacter litoralis15278RLO149_c032310putative pyridoxine 5'-phosphate synthase
RLO149_c034240pyridoxine 5'-phosphate synthase PdxJ
Salinibacter ruberSRU_2080Pyridoxal phosphate biosynthesis protein PdxJ
Serratia odorifera102598HMPREF0758_2458pyridoxine 5'-phosphate synthase
Shimwellia blattae105725EB105725_12_01460pyridoxine 5'-phosphate synthase
Solitalea canadensis15130Solca_4443pyridoxine 5''-phosphate synthase
Sphingobacterium spiritivorum14948HMPREF0766_11788pyridoxine 5'-phosphate synthase
Sphingobium japonicum101211SJA_C1-06670pyridoxine 5-phosphate synthase
Sphingobium sp.103272SLG_08340pyridoxine 5'-phosphate synthase
Sphingomonas echinoides15742SechA1_010100008869pyridoxine 5'-phosphate synthase
Sphingomonas wittichii105917Swit_3873pyridoxal phosphate biosynthetic protein PdxJ
Starkeya novella14993Snov_1633pyridoxal phosphate biosynthetic protein PdxJ
Synechococcus elongatusSynpcc7942_1194pyridoxal phosphate biosynthetic protein PdxJ
Synechocystis sp.slr1779pyridoxal phosphate biosynthetic protein; PdxJ
Thauera linaloolentis102519C666_08465pyridoxine 5'-phosphate synthase
Thermodesulfobacterium communeHL41_00835metalloprotease
Thermodesulfobium narugense100082Thena_0789Pyridoxine 5'-phosphate synthase
Thermodesulfovibrio yellowstoniiTHEYE_A1671pyridoxal phosphate biosynthetic protein PdxJ
Vibrio alginolyticus15630N646_1662Pyridoxine 5'-phosphate synthase
Vibrio ichthyoenteri15847VII00023_14705pyridoxine 5'-phosphate synthase
Vibrio metschnikovii103153VIB_000358pyridoxine 5'-phosphate synthase
Vibrio orientalis15638VIOR3934_16761pyridoxine 5'-phosphate synthase
Vibrio tubiashii15644VITU9109_03595pyridoxine 5'-phosphate synthase
Vibrio vulnificus15645B736_05850pyridoxine 5'-phosphate synthase
Weeksella virosa16016Weevi_1297Pyridoxine 5'-phosphate synthase
Xenococcus sp.Xen7305DRAFT_00023820pyridoxine 5''-phosphate synthase
Yersinia bercovieri105717yberc0001_30280Pyridoxine 5'-phosphate synthase
Yersinia rohdei105715yrohd0001_20930Pyridoxine 5'-phosphate synthase
Zymomonas mobilis subsp. pomaceae13757Zymop_1409pyridoxal phosphate biosynthetic protein PdxJ