pdxJ:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

PdxJ

PdxJ

Synonyms

pyridoxine 5'-phosphate synthase[1], B2564[2][1], PdxJ[2][1] , ECK2562, JW2548, b2564

pyridoxine 5'-phosphate synthase[1], B2564[2][1], PdxJ[2][1]

Product description

pyridoxine 5'-phosphate synthase[2][3];

Component of pyridoxine 5'-phosphate synthase[3]

Pyridoxine 5'-phosphate (PNP) synthase; homo-octamer[4]

pyridoxine 5'-phosphate synthase[2][3];

Component of pyridoxine 5'-phosphate synthase[3]

EC number (for enzymes)

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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013785

F

Seeded from EcoCyc (v14.0)

complete

GO:0005829

cytosol

PMID:16858726[5]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0008615

pyridoxine biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00279

P

Seeded from EcoCyc (v14.0)

complete

GO:0008615

pyridoxine biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004569

P

Seeded from EcoCyc (v14.0)

complete

GO:0008615

pyridoxine biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0664

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016769

transferase activity, transferring nitrogenous groups

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00279

F

Seeded from EcoCyc (v14.0)

complete

GO:0033856

pyridoxine 5'-phosphate synthase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.6.99.2

F

Seeded from EcoCyc (v14.0)

complete

pyridoxine biosynthetic process

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Missing: Valid GO ID, evidence, reference

GO:0008615

pyridoxine biosynthetic process

PMID:1537799[6]

IMP: Inferred from Mutant Phenotype

P

Table $

complete

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

amiA

PMID:16606699[7]

Experiment(s):EBI-1143283

Protein

xylF

PMID:16606699[7]

Experiment(s):EBI-1143283

Protein

Subunits of pyridoxine 5'-phosphate synthase

could be indirect

Protein

Subunits of pyridoxine 5'-phosphate synthase

could be indirect


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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

cytoplasm

From EcoCyc[3]


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc

MAELLLGVNI DHIATLRNAR GTAYPDPVQA AFIAEQAGAD GITVHLREDR RHITDRDVRI
LRQTLDTRMN LEMAVTEEML AIAVETKPHF CCLVPEKRQE VTTEGGLDVA GQRDKMRDAC
KRLADAGIQV SLFIDADEEQ IKAAAEVGAP FIEIHTGCYA DAKTDAEQAQ ELARIAKAAT
FAASLGLKVN AGHGLTYHNV KAIAAIPEMH ELNIGHAIIG RAVMTGLKDA VAEMKRLMLE ARG
Length

243

Mol. Wt

26.384 kDa

pI

5.9 (calculated)

Extinction coefficient

4,470 - 4,970 (calc based on 3 Y, 0 W, and 4 C residues)


Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Initiator Methionine

1

Removed

UniProt:P0A794

Domain

4..240

PF03740 Pyridoxal phosphate biosynthesis protein PdxJ

PMID:19920124[8]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=pdxJ taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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</protect>

Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130489

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947039

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008435

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A794

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10693

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10693

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947039

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000685

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0687

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. 1.0 1.1 1.2 1.3 1.4 1.5 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.0 2.1 2.2 2.3 2.4 2.5 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 3.2 3.3 3.4 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
  6. Takiff, HE et al. (1992) Locating essential Escherichia coli genes by using mini-Tn10 transposons: the pdxJ operon. J. Bacteriol. 174 1544-53 PubMed
  7. 7.0 7.1 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  8. Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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