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Entry version 66 (18 Sep 2019)
Sequence version 1 (01 Sep 2009)
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Protein

Pyridoxal 5'-phosphate synthase subunit Pdx1

Gene

pdx1

Organism
Plasmodium falciparum (isolate 3D7)
Status
Reviewed-Annotation score:

Annotation score:5 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>
-Experimental evidence at protein leveli <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 formation of pyridoxal 5'-phosphate from ribose 5-phosphate (RBP), glyceraldehyde 3-phosphate (G3P) and ammonia. The ammonia is provided by Pdx2. Can also use ribulose 5-phosphate and dihydroxyacetone phosphate as substrates, resulting from enzyme-catalyzed isomerization of RBP and G3P, respectively.1 Publication

<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: pyridoxal 5'-phosphate biosynthesis

This protein is involved in the pathway pyridoxal 5'-phosphate biosynthesis, which is part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the pathway pyridoxal 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 sitei26D-ribose 5-phosphateBy similarity1
<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 sitei83Schiff-base intermediate with D-ribose 5-phosphateBy similarity1
Binding sitei155D-ribose 5-phosphate; via amide nitrogenBy similarity1
Binding sitei167Glyceraldehyde 3-phosphateBy similarity1
Binding sitei216D-ribose 5-phosphate; via amide nitrogenBy similarity1

<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 functionLyase
LigandPyridoxal phosphate, Schiff base

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
PLASMO:PFF1025C-MONOMER

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
4.3.3.6 4889

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

More...
UniPathwayi
UPA00245

<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:
Pyridoxal 5'-phosphate synthase subunit Pdx1 (EC:4.3.3.62 Publications)
Short name:
PLP synthase subunit Pdx1
<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:pdx1
ORF Names:PFF1025cImported
<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>OrganismiPlasmodium falciparum (isolate 3D7)
<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 identifieri36329 [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 lineageiEukaryotaAlveolataApicomplexaAconoidasidaHaemosporidaPlasmodiidaePlasmodiumPlasmodium (Laverania)
<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
  • UP000001450 <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: Chromosome 6

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
PlasmoDB:PF3D7_0621200

<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

  • cytosol Source: GeneDB

Keywords - Cellular componenti

Cytoplasm

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi26D → A: No activity. 1 Publication1
Mutagenesisi83K → A: No activity. 1 Publication1
Mutagenesisi88H → A: No activity. No complexes formed. 1 Publication1
Mutagenesisi91E → A: No activity. No complexes formed. 1 Publication1
Mutagenesisi107E → A: No effect. 1 Publication1
Mutagenesisi136E → A: No effect on dodecamer assembly. No activity; when associated with A-139 and A-140. 1 Publication1
Mutagenesisi139R → A: No activity; when associated with A-136 and A-140. 1 Publication1
Mutagenesisi140R → A: No activity; when associated with A-136 and A-139. 1 Publication1
Mutagenesisi151K → A: No activity. The mutant forms hexamers instead of dodecamers. 1 Publication1

Chemistry databases

Drug and drug target database

More...
DrugBanki
DB11638 Artenimol

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004318381 – 301Pyridoxal 5'-phosphate synthase subunit Pdx1Add BLAST301

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
C6KT50

PTM databases

SwissPalm database of S-palmitoylation events

More...
SwissPalmi
C6KT50

<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

Homohexamer and homododecamer. In the presence of Pdx2, forms a dodecamer of heterodimers.

2 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

WithEntry#Exp.IntActNotes
itself4EBI-975011,EBI-975011

GO - Molecular functioni

Protein-protein interaction databases

Protein interaction database and analysis system

More...
IntActi
C6KT50, 1 interactor

Molecular INTeraction database

More...
MINTi
C6KT50

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
C6KT50

Database of comparative protein structure models

More...
ModBasei
Search...

<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

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni237 – 238D-ribose 5-phosphate bindingBy similarity2

<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 PdxS/SNZ family.Curated

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000227586

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
C6KT50

KEGG Orthology (KO)

More...
KOi
K06215

Identification of Orthologs from Complete Genome Data

More...
OMAi
IGVDMID

Database for complete collections of gene phylogenies

More...
PhylomeDBi
C6KT50

Family and domain databases

Conserved Domains Database

More...
CDDi
cd04727 pdxS, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.20.20.70, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR013785 Aldolase_TIM
IPR001852 PdxS/SNZ
IPR033755 PdxS/SNZ_N
IPR011060 RibuloseP-bd_barrel

The PANTHER Classification System

More...
PANTHERi
PTHR31829 PTHR31829, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01680 SOR_SNZ, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF029271 Pdx1, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF51366 SSF51366, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS01235 PDXS_SNZ_1, 1 hit
PS51129 PDXS_SNZ_2, 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.

C6KT50-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MENHKDDAVL LKHGWCEMLK GGVIMDVKSV EQAKIAEEAG AIGVMVLENI
60 70 80 90 100
PSELRNKEGV ARSVDPSKVE EIKKCVSINV LAKVRIGHFV EAQILEELKI
110 120 130 140 150
DMIDESEVLT IADEMHHIDK HKFKTPFVCG CTNLGEALRR ISEGASMIRT
160 170 180 190 200
KGEAGTGNII EAIKHIRTVN NEIKYLCSLS DSEVYHFAKK INAPIDLVLL
210 220 230 240 250
TKKLKRLPVV NFAAGGVATP ADAAMCMQLG MDGVFVGSGI FESENPRKMA
260 270 280 290 300
ASIVSAVSNF NNPKILLDVS MNLGKAMCGS TRVSDKWKNK NEEHTKFLTP

Q
Length:301
Mass (Da):33,013
Last modified:September 1, 2009 - 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:i87A2886A215ED219
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
AL844505 Genomic DNA Translation: CAG25026.1

NCBI Reference Sequences

More...
RefSeqi
XP_966196.1, XM_961103.1

Genome annotation databases

Ensembl protists genome annotation project

More...
EnsemblProtistsi
CAG25026; CAG25026; PF3D7_0621200

GeneDB pathogen genome database from Sanger Institute

More...
GeneDBi
PF3D7_0621200.1:pep

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
3885888

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
pfa:PF3D7_0621200

<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
AL844505 Genomic DNA Translation: CAG25026.1
RefSeqiXP_966196.1, XM_961103.1

3D structure databases

SMRiC6KT50
ModBaseiSearch...

Protein-protein interaction databases

IntActiC6KT50, 1 interactor
MINTiC6KT50

Chemistry databases

DrugBankiDB11638 Artenimol

PTM databases

SwissPalmiC6KT50

Proteomic databases

PRIDEiC6KT50

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsiCAG25026; CAG25026; PF3D7_0621200
GeneDBiPF3D7_0621200.1:pep
GeneIDi3885888
KEGGipfa:PF3D7_0621200

Organism-specific databases

EuPathDBiPlasmoDB:PF3D7_0621200

Phylogenomic databases

HOGENOMiHOG000227586
InParanoidiC6KT50
KOiK06215
OMAiIGVDMID
PhylomeDBiC6KT50

Enzyme and pathway databases

UniPathwayiUPA00245
BioCyciPLASMO:PFF1025C-MONOMER
BRENDAi4.3.3.6 4889

Family and domain databases

CDDicd04727 pdxS, 1 hit
Gene3Di3.20.20.70, 1 hit
InterProiView protein in InterPro
IPR013785 Aldolase_TIM
IPR001852 PdxS/SNZ
IPR033755 PdxS/SNZ_N
IPR011060 RibuloseP-bd_barrel
PANTHERiPTHR31829 PTHR31829, 1 hit
PfamiView protein in Pfam
PF01680 SOR_SNZ, 1 hit
PIRSFiPIRSF029271 Pdx1, 1 hit
SUPFAMiSSF51366 SSF51366, 1 hit
PROSITEiView protein in PROSITE
PS01235 PDXS_SNZ_1, 1 hit
PS51129 PDXS_SNZ_2, 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 nameiPDX1_PLAF7
<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: C6KT50
<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/Swiss-Prot: February 4, 2015
Last sequence update: September 1, 2009
Last modified: September 18, 2019
This is version 66 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 statusiReviewed (UniProtKB/Swiss-Prot)

<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 proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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