Conserved Protein Domain Family
PGP_bact

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TIGR01449: PGP_bact 
2-phosphoglycolate phosphatase, prokaryotic
PGP is an essential enzyme in the glycolate salvage pathway in higher organisms (photorespiration in plants). Phosphoglycolate results from the oxidase activity of RubisCO in the Calvin cycle when concentrations of carbon dioxide are low relative to oxygen. In Ralstonia (Alcaligenes) eutropha and Rhodobacter sphaeroides, the PGP gene (CbbZ) is located on an operon along with other Calvin cycle enzymes including RubisCO. The only other pertinent experimental evidence concerns the gene from E. coli. The in vitro activity of the Ralstonia and Escherichia enzymes was determined with crude cell extracts of strains containing PGP on expression plasmids and compared to controls. In E. coli, however, there does not appear to be a functional Calvin cycle (RubisCO is absent), although the E. coli PGP gene (gph) is on the same operon (dam) with ribulose-5-phosphate-3-epimerase (rpe), a gene in the pentose-phosphate pathway (along with other, unrelated genes). The E. coli enzyme is not expressed under normal laboratory conditions; the pathway to which it belongs has not been determined. In fact, the possibility exists, although unlikely, that the E. coli enzyme and others within this equivalog have as their physiological substrate another, closely related molecule. The other seed chosen for this model, from Xylella fastidiosa has no experimental evidence, but is a plant pathogen and thus may obtain phosphoglycolate from its host. This model has been restricted to encompass only proteobacteria as no related PGP has been verified outside of this clade. Sequences from Aquifex aeolicus and Treponema pallidum fall between the trusted and noise cutoffs. Just below the noise cutoff is a gene which is part of the operon for the biosynthesis of the blue pigment, indigoidine, from Erwinia (Pectobacterium) chrysanthemi, a plant pathogen. It does not seem likely, considering the proposed biosynthetic mechanism, that the dephosphorylation of phosphoglycolate or a closely related compound is required. Possibly, this gene is fortuitously located in this operon, or has an indirect relationship to the necessity for the biosynthesis of this compound. Sequences from 11 species have been annotated as PGP or putative PGP but fall below the noise cutoff. None of these have experimental validation. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702). [Energy metabolism, Sugars]
Statistics
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PSSM-Id: 130516
View PSSM: TIGR01449
Aligned: 4 rows
Threshold Bit Score: 282.865
Threshold Setting Gi: 730313
Created: 8-Oct-2014
Updated: 2-Oct-2020
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
P32662        10 VAFDLDGTLVDSAPGLAAAVDMALYALELPVAGEERVITWIGNGADVLMERALTWARQERATQrktmgkppvdddipaee 89  Escherichia col...
P40852        11 VLIDLDGTLVDSAPDIVEAANRMLADFGSPALPFDTVAGFIGRGVPNLVRRVLETAGLTPRVE----------------- 73  Ralstonia eutro...
P95650         4 VVFDLDGTLVHSAPDIHAAVNKALAEEGGAPFTLAEITGFIGNGVPVLIQRVLAARGEAPDAHr---------------- 67  Rhodobacter sph...
WP_010894913  15 VLFDLDGTLLDSAPDMLATANAMLAARGRAPITLAQLRPVISIGT--F--RILAVAFPELDAAa---------------- 74  Xylella fastidiosa
P32662        90 qVRILRKLFDRYYGEVAEEGTFLFPHVADTLGALQAKGLPLGLVTNKPTPFVAPLLEALDIAKYFSVVIGGDDVQNKKPH 169 Escherichia col...
P40852        74 -AAEAVAMFHRHYAETNGRLGSVFPGVEAGLEALRRQGYRLACVTNKPRALAVPLLALTGLSQYLEVLVAGDSIAQMKPD 152 Ralstonia eutro...
P95650        68 -QAELQGRFMAHYEADPATLTSVYPGAEAAIRHLRAEGWRIGLCTNKPVGASRQILSLFGLLELFDAIIGGESLPQRKPD 146 Rhodobacter sph...
WP_010894913  75 -IQGLIPEFLQRYEALIGSVSKPFDGVEMMLDALECAGTVWGIVTNKPEFLARLILPLLGWTSRCAVLIGGDTLAERKPH 153 Xylella fastidiosa
P32662       170 PDPLLLVAERMGIAPQQMLFVGDSRNDIQAAKAAGCPSVGLTYGYNYGEAIDLSQPDVIYQSINDLLPAL 239 Escherichia coli K-12
P40852       153 PEPLRHACNLLDVDTAQGVLVGDSAVDVAAARAAGIPVCLVRYGYAGPGGPAALGADALLDSLEALPALL 222 Ralstonia eutropha H16
P95650       147 PAPLRATAAALNEEVVL--YVGDSEVDAATAEAAGLRFALFTEGYR-HAPVHELPHHGLFSHHDELQDLL 213 Rhodobacter sphaeroides
WP_010894913 154 PLPLLTAAERIGVMPTDCVYVGDDVSDIQAARAAGMPSMVALWGYR---SHEDNPMTWQADTLVEQPHLL 220 Xylella fastidiosa
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