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Protein

Pyridoxal 5'-phosphate synthase subunit PdxS

Gene

pdxS

Organism
Mycobacterium leprae (strain TN)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the formation of pyridoxal 5'-phosphate from ribose 5-phosphate (RBP), glyceraldehyde 3-phosphate (G3P) and ammonia. The ammonia is provided by the PdxT subunit. Can also use ribulose 5-phosphate and dihydroxyacetone phosphate as substrates, resulting from enzyme-catalyzed isomerization of RBP and G3P, respectively.UniRule annotation

Catalytic activityi

D-ribose 5-phosphate + D-glyceraldehyde 3-phosphate + L-glutamine = pyridoxal 5'-phosphate + L-glutamate + 3 H2O + phosphate.UniRule annotation

Pathwayi: pyridoxal 5'-phosphate biosynthesis

This protein is involved in the pathway pyridoxal 5'-phosphate biosynthesis, which is part of Cofactor biosynthesis.UniRule annotation
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
Binding sitei37D-ribose 5-phosphateUniRule annotation1
Active sitei94Schiff-base intermediate with D-ribose 5-phosphateUniRule annotation1
Binding sitei166D-ribose 5-phosphate; via amide nitrogenUniRule annotation1
Binding sitei178Glyceraldehyde 3-phosphateUniRule annotation1
Binding sitei227D-ribose 5-phosphate; via amide nitrogenUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Ligandi

Pyridoxal phosphate, Schiff base

Enzyme and pathway databases

UniPathwayiUPA00245.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyridoxal 5'-phosphate synthase subunit PdxSUniRule annotation (EC:4.3.3.6UniRule annotation)
Short name:
PLP synthase subunit PdxSUniRule annotation
Alternative name(s):
Pdx1UniRule annotation
Gene namesi
Name:pdxSUniRule annotation
Ordered Locus Names:ML0450
ORF Names:MLCL581.12c
OrganismiMycobacterium leprae (strain TN)
Taxonomic identifieri272631 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000000806 Componenti: Chromosome

Organism-specific databases

LepromaiML0450.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001094031 – 307Pyridoxal 5'-phosphate synthase subunit PdxSAdd BLAST307

Interactioni

Subunit structurei

In the presence of PdxT, forms a dodecamer of heterodimers.UniRule annotation

Protein-protein interaction databases

STRINGi272631.ML0450.

Structurei

3D structure databases

ProteinModelPortaliO07145.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni248 – 249D-ribose 5-phosphate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the PdxS/SNZ family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CD9. Bacteria.
COG0214. LUCA.
HOGENOMiHOG000227586.
KOiK06215.
OMAiMVGINES.
OrthoDBiPOG091H0A28.

Family and domain databases

CDDicd04727. pdxS. 1 hit.
Gene3Di3.20.20.70. 2 hits.
HAMAPiMF_01824. PdxS. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR001852. PdxS/SNZ.
IPR033755. PdxS/SNZ_N.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamiPF01680. SOR_SNZ. 1 hit.
[Graphical view]
PIRSFiPIRSF029271. Pdx1. 1 hit.
SUPFAMiSSF51366. SSF51366. 1 hit.
TIGRFAMsiTIGR00343. TIGR00343. 1 hit.
PROSITEiPS01235. PDXS_SNZ_1. 1 hit.
PS51129. PDXS_SNZ_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O07145-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDSAAQSNQA QSVFGQTGTA RVKRGMAEML KGGVIMDVVI PEQARIAEGS
60 70 80 90 100
GAVAVMALER VPSDIRAQGG VSRMSDPDMI ESIIAAVTIP VMAKARIGHF
110 120 130 140 150
VEAQILQSLG VDYIDESEVL TPADYTHHID KWKFTVPFVC GATNLGEALR
160 170 180 190 200
RINEGAAMIR SKGEAGTGDV SNATTHMRAI AGDIRRLTSL SEDELYVAAK
210 220 230 240 250
ELHAPYELVI EVARTNKLPV TLFTAGGIAT PADAAMMMQL GAEGIFVGSG
260 270 280 290 300
IFKSSDPAQR AAAIVKATTF YDDPDVLAKV SRGLGEAMAG IDVEQIAQPD

RLAQRGW
Length:307
Mass (Da):32,571
Last modified:April 27, 2001 - v2
Checksum:iE7C3998258AE187E
GO

Sequence cautioni

The sequence CAB09637 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z96801 Genomic DNA. Translation: CAB09637.1. Different initiation.
AL583918 Genomic DNA. Translation: CAC29958.1.
PIRiB86965.
RefSeqiNP_301404.1. NC_002677.1.
WP_010907728.1. NC_002677.1.

Genome annotation databases

EnsemblBacteriaiCAC29958; CAC29958; CAC29958.
GeneIDi909197.
KEGGimle:ML0450.
PATRICi18051692. VBIMycLep78757_0793.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z96801 Genomic DNA. Translation: CAB09637.1. Different initiation.
AL583918 Genomic DNA. Translation: CAC29958.1.
PIRiB86965.
RefSeqiNP_301404.1. NC_002677.1.
WP_010907728.1. NC_002677.1.

3D structure databases

ProteinModelPortaliO07145.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272631.ML0450.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAC29958; CAC29958; CAC29958.
GeneIDi909197.
KEGGimle:ML0450.
PATRICi18051692. VBIMycLep78757_0793.

Organism-specific databases

LepromaiML0450.

Phylogenomic databases

eggNOGiENOG4105CD9. Bacteria.
COG0214. LUCA.
HOGENOMiHOG000227586.
KOiK06215.
OMAiMVGINES.
OrthoDBiPOG091H0A28.

Enzyme and pathway databases

UniPathwayiUPA00245.

Family and domain databases

CDDicd04727. pdxS. 1 hit.
Gene3Di3.20.20.70. 2 hits.
HAMAPiMF_01824. PdxS. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR001852. PdxS/SNZ.
IPR033755. PdxS/SNZ_N.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamiPF01680. SOR_SNZ. 1 hit.
[Graphical view]
PIRSFiPIRSF029271. Pdx1. 1 hit.
SUPFAMiSSF51366. SSF51366. 1 hit.
TIGRFAMsiTIGR00343. TIGR00343. 1 hit.
PROSITEiPS01235. PDXS_SNZ_1. 1 hit.
PS51129. PDXS_SNZ_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPDXS_MYCLE
AccessioniPrimary (citable) accession number: O07145
Secondary accession number(s): Q9CCU1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: April 27, 2001
Last modified: November 30, 2016
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.