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Entry version 9 (16 Oct 2019)
Sequence version 1 (18 Jul 2018)
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Protein

Erythronate-4-phosphate dehydrogenase

Gene

pdxB

Organism
Salmonella enterica subsp. enterica serovar Agona
Status
Unreviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Catalyzes the oxidation of erythronate-4-phosphate to 3-hydroxy-2-oxo-4-phosphonooxybutanoate.UniRule annotationSAAS annotation

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation
The sequence shown here is derived from an EMBL/GenBank/DDBJ whole genome shotgun (WGS) entry which is preliminary data.Imported

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: pyridoxine 5'-phosphate biosynthesis

This protein is involved in step 2 of the subpathway that synthesizes pyridoxine 5'-phosphate from D-erythrose 4-phosphate.UniRule annotationSAAS annotation
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. D-erythrose-4-phosphate dehydrogenase (gapA)
  2. Erythronate-4-phosphate dehydrogenase (pdxB)
  3. Phosphoserine aminotransferase (serC)
  4. 4-hydroxythreonine-4-phosphate dehydrogenase (pdxA)
  5. Pyridoxine 5'-phosphate synthase (pdxJ)
This subpathway is part of the pathway pyridoxine 5'-phosphate biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes pyridoxine 5'-phosphate from D-erythrose 4-phosphate, the pathway pyridoxine 5'-phosphate biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei45SubstrateUniRule annotation1
Binding sitei66SubstrateUniRule annotation1
Binding sitei146NADUniRule annotation1
Binding sitei175NAD; via carbonyl oxygenUniRule annotation1
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei208UniRule annotation1
Binding sitei232NADUniRule annotation1
Active sitei237UniRule annotation1
Active sitei254Proton donorUniRule annotation1
Binding sitei257NAD; via amide nitrogenUniRule annotation1
Binding sitei258SubstrateUniRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionOxidoreductaseUniRule annotationSAAS annotation
Biological processPyridoxine biosynthesisUniRule annotationSAAS annotation
LigandNADUniRule annotationSAAS annotation

Enzyme and pathway databases

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00244;UER00310

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Erythronate-4-phosphate dehydrogenaseUniRule annotationSAAS annotation (EC:1.1.1.290UniRule annotation)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:pdxBUniRule annotationImported
ORF Names:AGK71_12290Imported, AIB59_08150Imported, AIB60_08155Imported, AMA70_05315Imported, C4792_07365Imported, E2E37_08780Imported, E2E38_08145Imported, E2E40_08150Imported, E2E41_08140Imported, E2E42_08465Imported, E2E43_08145Imported, E2E44_08775Imported, E2E45_08150Imported, E2E46_08145Imported, E2E47_08465Imported, E2E54_08245Imported, E2E57_08780Imported, E2E59_08770Imported, E2E61_08460Imported, E2E69_08770Imported, EGK72_08145Imported, FG615_007750Imported, FG622_006585Imported, FG628_010815Imported, FG711_009995Imported, FG712_010670Imported, FG713_10050Imported, FG714_010040Imported, FG715_009985Imported, FG716_09915Imported, FG717_10615Imported, FG718_009995Imported, QW66_19970Imported, WP21_18710Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSalmonella enterica subsp. enterica serovar AgonaImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri58095 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeSalmonella
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000245147 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Unassembled WGS sequence

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer.

UniRule annotationSAAS annotation

GO - Molecular functioni

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini5 – 2812-Hacid_dhInterPro annotationAdd BLAST277
Domaini109 – 2452-Hacid_dh_CInterPro annotationAdd BLAST137
Domaini289 – 369DUF3410InterPro annotationAdd BLAST81

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family. PdxB subfamily.UniRule annotationSAAS annotation

Family and domain databases

Conserved Domains Database

More...
CDDi
cd12158 ErythrP_dh, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.30.1370.170, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_01825 PdxB, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006139 D-isomer_2_OHA_DH_cat_dom
IPR029753 D-isomer_DH_CS
IPR029752 D-isomer_DH_CS1
IPR006140 D-isomer_DH_NAD-bd
IPR020921 Erythronate-4-P_DHase
IPR024531 Erythronate-4-P_DHase_dimer
IPR036291 NAD(P)-bd_dom_sf
IPR038251 PdxB_dimer_sf

The PANTHER Classification System

More...
PANTHERi
PTHR42938:SF3 PTHR42938:SF3, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00389 2-Hacid_dh, 1 hit
PF02826 2-Hacid_dh_C, 1 hit
PF11890 DUF3410, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF51735 SSF51735, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00065 D_2_HYDROXYACID_DH_1, 1 hit
PS00671 D_2_HYDROXYACID_DH_3, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

A0A2T9I7I9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKILVDENMP YARELFSRLG EVKAVPGRPI PVEELNHADA LMVRSVTKVN
60 70 80 90 100
ESLLSGTPIN FVGTATAGTD HVDEAWLKQA GIGFSAAPGC NAIAVVEYVF
110 120 130 140 150
SALLMLAERD GFSLRDRTIG IVGVGNVGSR LQTRLEALGI RTLLCDPPRA
160 170 180 190 200
ARGDEGDFRT LDELVQEADV LTFHTPLYKD GPYKTLHLAD ETLIRRLKPG
210 220 230 240 250
AILINACRGP VVDNAALLAR LNAGQPLSVV LDVWEGEPDL NVALLEAVDI
260 270 280 290 300
GTSHIAGYTL EGKARGTTQV FEAYSAFIGR EQRVALETLL PAPEFGRITL
310 320 330 340 350
HGPLDQPTLK RLAHLVYDVR RDDAPLRKVA GIPGEFDKLR KNYLERREWS
360 370
SLYVMCDDET AAALLCKLGF NAVHHPAH
Length:378
Mass (Da):41,298
Last modified:July 18, 2018 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i365198C8CA796241
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AAACNC010000013 Genomic DNA Translation: EAA7583983.1
AAACOE010000004 Genomic DNA Translation: EAA7835342.1
AAACXB010000005 Genomic DNA Translation: EAA8825028.1
AAACXX010000004 Genomic DNA Translation: EAA8917002.1
AAACZT010000015 Genomic DNA Translation: EAA9143449.1
AAADDS010000002 Genomic DNA Translation: EAA9605106.1
QDOG01000003 Genomic DNA Translation: PVL96374.1
SMON01000003 Genomic DNA Translation: TKZ43668.1
SMOO01000003 Genomic DNA Translation: TKZ44711.1
SMOP01000003 Genomic DNA Translation: TKZ48767.1
SMOQ01000003 Genomic DNA Translation: TKZ57742.1
SMOR01000003 Genomic DNA Translation: TKZ58093.1
SMOT01000003 Genomic DNA Translation: TKZ63571.1
SMOS01000003 Genomic DNA Translation: TKZ70330.1
SMOU01000003 Genomic DNA Translation: TKZ73257.1
SMOV01000003 Genomic DNA Translation: TKZ78879.1
SMOW01000003 Genomic DNA Translation: TKZ83144.1
SMPB01000003 Genomic DNA Translation: TLA00581.1
SMPE01000003 Genomic DNA Translation: TLA13880.1
SMPH01000003 Genomic DNA Translation: TLA28588.1
SMPJ01000003 Genomic DNA Translation: TLA40655.1
SMPL01000003 Genomic DNA Translation: TLA55361.1
SMPT01000003 Genomic DNA Translation: TLA87072.1
VCUQ02000004 Genomic DNA Translation: TRD62649.1
VCWW02000004 Genomic DNA Translation: TRD81759.1
VCUP02000004 Genomic DNA Translation: TRG05147.1
VCUO02000004 Genomic DNA Translation: TRG06559.1
VCUS02000004 Genomic DNA Translation: TRG22670.1
VCUR02000004 Genomic DNA Translation: TRG33344.1
VCXF02000003 Genomic DNA Translation: TRI56042.1
VCXA02000003 Genomic DNA Translation: TRI63986.1
VLQZ01000004 Genomic DNA Translation: TSF94823.1
VLRA01000004 Genomic DNA Translation: TSF99826.1
VMKI01000004 Genomic DNA Translation: TVO54625.1

NCBI Reference Sequences

More...
RefSeqi
WP_000699178.1, NZ_VCXF01000003.1

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAACNC010000013 Genomic DNA Translation: EAA7583983.1
AAACOE010000004 Genomic DNA Translation: EAA7835342.1
AAACXB010000005 Genomic DNA Translation: EAA8825028.1
AAACXX010000004 Genomic DNA Translation: EAA8917002.1
AAACZT010000015 Genomic DNA Translation: EAA9143449.1
AAADDS010000002 Genomic DNA Translation: EAA9605106.1
QDOG01000003 Genomic DNA Translation: PVL96374.1
SMON01000003 Genomic DNA Translation: TKZ43668.1
SMOO01000003 Genomic DNA Translation: TKZ44711.1
SMOP01000003 Genomic DNA Translation: TKZ48767.1
SMOQ01000003 Genomic DNA Translation: TKZ57742.1
SMOR01000003 Genomic DNA Translation: TKZ58093.1
SMOT01000003 Genomic DNA Translation: TKZ63571.1
SMOS01000003 Genomic DNA Translation: TKZ70330.1
SMOU01000003 Genomic DNA Translation: TKZ73257.1
SMOV01000003 Genomic DNA Translation: TKZ78879.1
SMOW01000003 Genomic DNA Translation: TKZ83144.1
SMPB01000003 Genomic DNA Translation: TLA00581.1
SMPE01000003 Genomic DNA Translation: TLA13880.1
SMPH01000003 Genomic DNA Translation: TLA28588.1
SMPJ01000003 Genomic DNA Translation: TLA40655.1
SMPL01000003 Genomic DNA Translation: TLA55361.1
SMPT01000003 Genomic DNA Translation: TLA87072.1
VCUQ02000004 Genomic DNA Translation: TRD62649.1
VCWW02000004 Genomic DNA Translation: TRD81759.1
VCUP02000004 Genomic DNA Translation: TRG05147.1
VCUO02000004 Genomic DNA Translation: TRG06559.1
VCUS02000004 Genomic DNA Translation: TRG22670.1
VCUR02000004 Genomic DNA Translation: TRG33344.1
VCXF02000003 Genomic DNA Translation: TRI56042.1
VCXA02000003 Genomic DNA Translation: TRI63986.1
VLQZ01000004 Genomic DNA Translation: TSF94823.1
VLRA01000004 Genomic DNA Translation: TSF99826.1
VMKI01000004 Genomic DNA Translation: TVO54625.1
RefSeqiWP_000699178.1, NZ_VCXF01000003.1

3D structure databases

Database of comparative protein structure models

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ModBasei
Search...

SWISS-MODEL Interactive Workspace

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SWISS-MODEL-Workspacei
Submit a new modelling project...

Enzyme and pathway databases

UniPathwayiUPA00244;UER00310

Family and domain databases

CDDicd12158 ErythrP_dh, 1 hit
Gene3Di3.30.1370.170, 1 hit
HAMAPiMF_01825 PdxB, 1 hit
InterProiView protein in InterPro
IPR006139 D-isomer_2_OHA_DH_cat_dom
IPR029753 D-isomer_DH_CS
IPR029752 D-isomer_DH_CS1
IPR006140 D-isomer_DH_NAD-bd
IPR020921 Erythronate-4-P_DHase
IPR024531 Erythronate-4-P_DHase_dimer
IPR036291 NAD(P)-bd_dom_sf
IPR038251 PdxB_dimer_sf
PANTHERiPTHR42938:SF3 PTHR42938:SF3, 1 hit
PfamiView protein in Pfam
PF00389 2-Hacid_dh, 1 hit
PF02826 2-Hacid_dh_C, 1 hit
PF11890 DUF3410, 1 hit
SUPFAMiSSF51735 SSF51735, 1 hit
PROSITEiView protein in PROSITE
PS00065 D_2_HYDROXYACID_DH_1, 1 hit
PS00671 D_2_HYDROXYACID_DH_3, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiA0A2T9I7I9_SALET
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: A0A2T9I7I9
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: July 18, 2018
Last sequence update: July 18, 2018
Last modified: October 16, 2019
This is version 9 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteomeImported
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Main funding by: National Institutes of Health

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