UniProtKB - P0A924 (PGPB_ECOLI)
Protein
Phosphatidylglycerophosphatase B
Gene
pgpB
Organism
Escherichia coli (strain K12)
Status
Functioni
Catalyzes the dephosphorylation of diacylglycerol diphosphate (DGPP) to phosphatidate (PA) and the subsequent dephosphorylation of PA to diacylglycerol (DAG). Also has undecaprenyl pyrophosphate phosphatase activity, required for the biosynthesis of the lipid carrier undecaprenyl phosphate. Can also use lysophosphatidic acid (LPA) and phosphatidylglycerophosphate as substrates. The pattern of activities varies according to subcellular location, PGP phosphatase activity is higher in the cytoplasmic membrane, whereas PA and LPA phosphatase activities are higher in the outer membrane. Activity is independent of a divalent cation ion and insensitive to inhibition by N-ethylmaleimide.4 Publications
Miscellaneous
The enzyme active site contains a catalytic triad that establishes a charge relay system. This catalytic triad is essential for the dephosphorylation of LPA, PA, and sphingosine-1-phosphate, but is not essential in its entirety for the dephosphorylation of PGP, the nucleophilic histidine alone is sufficient to hydrolyze PGP.1 Publication
Catalytic activityi
- 1,2-diacyl-sn-glycero-3-phospho-(1ʼ-sn-glycero-3ʼ-phosphate) + H2O = 1,2-diacyl-sn-glycero-3-phospho-(1'-sn-glycerol) + phosphateEC:3.1.3.27
- EC:3.1.3.81
- EC:3.1.3.4
- di-trans,octa-cis-undecaprenyl diphosphate + H2O = di-trans,octa-cis-undecaprenyl phosphate + H+ + phosphateEC:3.6.1.27
Activity regulationi
Inhibited by Mn2+ ions. Inhibited by phosphatidylethanolamine (PE) (PubMed:27405756).1 Publication
Kineticsi
- KM=530 µM for undecaprenyl pyrophosphate2 Publications
- KM=96 µM for farnesyl pyrophosphate2 Publications
- KM=80 µM for diacylglycerol pyrophosphate2 Publications
- KM=1700 µM for phosphatidate2 Publications
- Vmax=2167 nmol/min/mg enzyme with diacylglycerol pyrophosphate as substrate2 Publications
- Vmax=313 nmol/min/mg enzyme with phosphatidate as substrate2 Publications
pH dependencei
Optimum pH is 6.5 for DGPP phosphatase activity and 6.5-7.5 for undecaprenyl pyrophosphate phosphatase activity.2 Publications
: phosphatidylglycerol biosynthesis Pathwayi
This protein is involved in step 2 of the subpathway that synthesizes phosphatidylglycerol from CDP-diacylglycerol.Proteins known to be involved in the 2 steps of the subpathway in this organism are:
- CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (pgsA), CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (pgsA)
- Phosphatidylglycerophosphatase A (pgpA), Phosphatidylglycerophosphatase A (pgpA), Phosphatidylglycerophosphatase B (pgpB), Phosphatidylglycerophosphatase C (pgpC)
View all proteins of this organism that are known to be involved in the subpathway that synthesizes phosphatidylglycerol from CDP-diacylglycerol, the pathway phosphatidylglycerol biosynthesis and in Phospholipid metabolism.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 163 | Proton donor; for a subset of substrates1 Publication | 1 | |
Active sitei | 207 | Nucleophile1 Publication | 1 | |
Sitei | 211 | Stabilizes the active site histidine for nucleophilic attack1 Publication | 1 |
GO - Molecular functioni
- diacylglycerol diphosphate phosphatase activity Source: UniProtKB-EC
- phosphatidate phosphatase activity Source: UniProtKB-EC
- phosphatidylglycerophosphatase activity Source: EcoCyc
- undecaprenyl-diphosphatase activity Source: EcoCyc
GO - Biological processi
- glycerophospholipid biosynthetic process Source: EcoCyc
- peptidoglycan biosynthetic process Source: EcoCyc
- phosphatidylglycerol biosynthetic process Source: UniProtKB-UniPathway
- phospholipid catabolic process Source: UniProtKB-KW
Keywordsi
Molecular function | Hydrolase |
Biological process | Lipid degradation, Lipid metabolism, Phospholipid degradation, Phospholipid metabolism |
Enzyme and pathway databases
BioCyci | EcoCyc:PGPPHOSPHAB-MONOMER MetaCyc:PGPPHOSPHAB-MONOMER |
UniPathwayi | UPA00084;UER00504 |
Names & Taxonomyi
Protein namesi | |
Gene namesi | Name:pgpB Ordered Locus Names:b1278, JW1270 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
Plasma membrane
- Cell inner membrane 1 Publication; Multi-pass membrane protein 1 Publication
Other locations
- Cell outer membrane 1 Publication; Multi-pass membrane protein 1 Publication
Plasma Membrane
- integral component of plasma membrane Source: EcoCyc
- plasma membrane Source: EcoCyc
Other locations
- cell outer membrane Source: EcoCyc
Topology
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Transmembranei | 2 – 24 | Helical1 PublicationAdd BLAST | 23 | |
Topological domaini | 25 – 54 | Periplasmic1 PublicationAdd BLAST | 30 | |
Transmembranei | 55 – 66 | Helical1 PublicationAdd BLAST | 12 | |
Topological domaini | 67 – 71 | Cytoplasmic1 Publication | 5 | |
Transmembranei | 72 – 94 | Helical1 PublicationAdd BLAST | 23 | |
Topological domaini | 95 – 161 | Periplasmic1 PublicationAdd BLAST | 67 | |
Transmembranei | 162 – 176 | Helical1 PublicationAdd BLAST | 15 | |
Topological domaini | 177 – 182 | Cytoplasmic1 Publication | 6 | |
Transmembranei | 183 – 202 | Helical1 PublicationAdd BLAST | 20 | |
Topological domaini | 203 – 208 | Periplasmic1 Publication | 6 | |
Transmembranei | 209 – 232 | Helical1 PublicationAdd BLAST | 24 | |
Topological domaini | 233 – 254 | Cytoplasmic1 PublicationAdd BLAST | 22 |
Keywords - Cellular componenti
Cell inner membrane, Cell membrane, Cell outer membrane, MembranePTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | Removed | |||
ChainiPRO_0000058362 | 2 – 254 | Phosphatidylglycerophosphatase BAdd BLAST | 253 |
Post-translational modificationi
The N-terminus is blocked.
Proteomic databases
PaxDbi | P0A924 |
PRIDEi | P0A924 |
Interactioni
Protein-protein interaction databases
BioGRIDi | 4262195, 215 interactors |
IntActi | P0A924, 1 interactor |
STRINGi | 511145.b1278 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P0A924 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 97 – 105 | Phosphatase sequence motif ICurated | 9 | |
Regioni | 160 – 163 | Phosphatase sequence motif IICurated | 4 | |
Regioni | 200 – 211 | Phosphatase sequence motif IIICuratedAdd BLAST | 12 |
Sequence similaritiesi
Belongs to the PA-phosphatase related phosphoesterase family.Curated
Keywords - Domaini
Transmembrane, Transmembrane helixPhylogenomic databases
eggNOGi | COG0671, Bacteria |
HOGENOMi | CLU_083863_0_0_6 |
InParanoidi | P0A924 |
Family and domain databases
InterProi | View protein in InterPro IPR036938, P_Acid_Pase_2/haloperoxi_sf IPR000326, P_Acid_Pase_2/haloperoxidase |
Pfami | View protein in Pfam PF01569, PAP2, 1 hit |
SMARTi | View protein in SMART SM00014, acidPPc, 1 hit |
SUPFAMi | SSF48317, SSF48317, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
P0A924-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MRSIARRTAV GAALLLVMPV AVWISGWRWQ PGEQSWLLKA AFWVTETVTQ
60 70 80 90 100
PWGVITHLIL FGWFLWCLRF RIKAAFVLFA ILAAAILVGQ GVKSWIKDKV
110 120 130 140 150
QEPRPFVIWL EKTHHIPVDE FYTLKRAERG NLVKEQLAEE KNIPQYLRSH
160 170 180 190 200
WQKETGFAFP SGHTMFAASW ALLAVGLLWP RRRTLTIAIL LVWATGVMGS
210 220 230 240 250
RLLLGMHWPR DLVVATLISW ALVAVATWLA QRICGPLTPP AEENREIAQR
EQES
Mass spectrometryi
Molecular mass is 30151 Da. Determined by MALDI. Reported mass includes mass of a C-terminal His6 tag.1 Publication
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M23628 Unassigned DNA Translation: AAB36618.1 U00096 Genomic DNA Translation: AAC74360.1 AP009048 Genomic DNA Translation: BAA14832.1 |
PIRi | A30193, PAECGB |
RefSeqi | NP_415794.1, NC_000913.3 WP_001256538.1, NZ_STEB01000005.1 |
Genome annotation databases
EnsemblBacteriai | AAC74360; AAC74360; b1278 BAA14832; BAA14832; BAA14832 |
GeneIDi | 58388642 945863 |
KEGGi | ecj:JW1270 eco:b1278 |
PATRICi | fig|1411691.4.peg.1003 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M23628 Unassigned DNA Translation: AAB36618.1 U00096 Genomic DNA Translation: AAC74360.1 AP009048 Genomic DNA Translation: BAA14832.1 |
PIRi | A30193, PAECGB |
RefSeqi | NP_415794.1, NC_000913.3 WP_001256538.1, NZ_STEB01000005.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
4PX7 | X-ray | 3.20 | A | 2-254 | [»] | |
5JWY | X-ray | 3.20 | A | 1-254 | [»] | |
SMRi | P0A924 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4262195, 215 interactors |
IntActi | P0A924, 1 interactor |
STRINGi | 511145.b1278 |
Proteomic databases
PaxDbi | P0A924 |
PRIDEi | P0A924 |
Genome annotation databases
EnsemblBacteriai | AAC74360; AAC74360; b1278 BAA14832; BAA14832; BAA14832 |
GeneIDi | 58388642 945863 |
KEGGi | ecj:JW1270 eco:b1278 |
PATRICi | fig|1411691.4.peg.1003 |
Organism-specific databases
EchoBASEi | EB0699 |
Phylogenomic databases
eggNOGi | COG0671, Bacteria |
HOGENOMi | CLU_083863_0_0_6 |
InParanoidi | P0A924 |
Enzyme and pathway databases
UniPathwayi | UPA00084;UER00504 |
BioCyci | EcoCyc:PGPPHOSPHAB-MONOMER MetaCyc:PGPPHOSPHAB-MONOMER |
Miscellaneous databases
PROi | PR:P0A924 |
Family and domain databases
InterProi | View protein in InterPro IPR036938, P_Acid_Pase_2/haloperoxi_sf IPR000326, P_Acid_Pase_2/haloperoxidase |
Pfami | View protein in Pfam PF01569, PAP2, 1 hit |
SMARTi | View protein in SMART SM00014, acidPPc, 1 hit |
SUPFAMi | SSF48317, SSF48317, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | PGPB_ECOLI | |
Accessioni | P0A924Primary (citable) accession number: P0A924 Secondary accession number(s): P18201 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 19, 2005 |
Last sequence update: | July 19, 2005 | |
Last modified: | April 7, 2021 | |
This is version 116 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- PATHWAY comments
Index of metabolic and biosynthesis pathways - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families