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P0A9T0

- SERA_ECOLI

UniProt

P0A9T0 - SERA_ECOLI

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Protein

D-3-phosphoglycerate dehydrogenase

Gene

serA

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Catalytic activityi

3-phospho-D-glycerate + NAD+ = 3-phosphonooxypyruvate + NADH.
2-hydroxyglutarate + NAD+ = 2-oxoglutarate + NADH.

Enzyme regulationi

In bacteria displays feedback inhibition by L-serine.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei181 – 1811NADBy similarity
Active sitei240 – 2401
Binding sitei264 – 2641NADBy similarity
Active sitei269 – 2691
Active sitei292 – 2921Proton donor

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi161 – 1622NADBy similarity
Nucleotide bindingi238 – 2403NADBy similarity
Nucleotide bindingi292 – 2954NADBy similarity

GO - Molecular functioni

  1. 2-hydroxyglutarate dehydrogenase activity Source: EcoCyc
  2. identical protein binding Source: EcoCyc
  3. NAD binding Source: InterPro
  4. phosphoglycerate dehydrogenase activity Source: EcoCyc
  5. serine binding Source: EcoCyc

GO - Biological processi

  1. L-serine biosynthetic process Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Amino-acid biosynthesis, Serine biosynthesis

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciEcoCyc:PGLYCDEHYDROG-MONOMER.
ECOL316407:JW2880-MONOMER.
MetaCyc:PGLYCDEHYDROG-MONOMER.
SABIO-RKP0A9T0.
UniPathwayiUPA00135; UER00196.

Names & Taxonomyi

Protein namesi
Recommended name:
D-3-phosphoglycerate dehydrogenase (EC:1.1.1.95)
Short name:
PGDH
Gene namesi
Name:serA
Ordered Locus Names:b2913, JW2880
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG10944. serA.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 410409D-3-phosphoglycerate dehydrogenasePRO_0000075999Add
BLAST

Proteomic databases

PaxDbiP0A9T0.
PRIDEiP0A9T0.

PTM databases

PhosSiteiP0810437.

Expressioni

Gene expression databases

GenevestigatoriP0A9T0.

Interactioni

Subunit structurei

Homotetramer.

Protein-protein interaction databases

DIPiDIP-10851N.
IntActiP0A9T0. 3 interactions.
STRINGi511145.b2913.

Structurei

Secondary structure

1
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni6 – 83Combined sources
Beta strandi9 – 113Combined sources
Beta strandi13 – 153Combined sources
Helixi21 – 299Combined sources
Beta strandi35 – 373Combined sources
Helixi44 – 507Combined sources
Beta strandi55 – 595Combined sources
Beta strandi61 – 633Combined sources
Helixi67 – 726Combined sources
Beta strandi78 – 814Combined sources
Helixi91 – 966Combined sources
Turni105 – 1084Combined sources
Helixi109 – 12517Combined sources
Helixi127 – 13610Combined sources
Helixi143 – 1453Combined sources
Beta strandi153 – 1575Combined sources
Helixi161 – 17212Combined sources
Beta strandi176 – 1805Combined sources
Helixi197 – 2037Combined sources
Beta strandi205 – 2095Combined sources
Turni215 – 2195Combined sources
Helixi223 – 2286Combined sources
Beta strandi233 – 2375Combined sources
Beta strandi241 – 2444Combined sources
Helixi246 – 2549Combined sources
Beta strandi257 – 2648Combined sources
Turni276 – 2783Combined sources
Helixi279 – 2813Combined sources
Beta strandi287 – 2904Combined sources
Helixi298 – 31821Combined sources
Beta strandi324 – 3274Combined sources
Beta strandi336 – 34611Combined sources
Helixi350 – 36011Combined sources
Beta strandi364 – 3729Combined sources
Beta strandi374 – 38411Combined sources
Helixi387 – 39812Combined sources
Beta strandi403 – 4108Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1PSDX-ray2.75A/B2-410[»]
1SC6X-ray2.09A/B/C/D7-410[»]
1YBAX-ray2.24A/B/C/D1-410[»]
2P9CX-ray2.46A/B1-410[»]
2P9EX-ray2.60A/B/C/D1-410[»]
2P9GX-ray2.80A/B1-410[»]
2PA3X-ray2.74A1-410[»]
ProteinModelPortaliP0A9T0.
SMRiP0A9T0. Positions 5-410.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A9T0.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini339 – 41072ACTPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 ACT domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0111.
HOGENOMiHOG000136696.
InParanoidiP0A9T0.
KOiK00058.
OMAiKFVKYSD.
OrthoDBiEOG6VXFC3.
PhylomeDBiP0A9T0.

Family and domain databases

Gene3Di3.40.50.720. 2 hits.
InterProiIPR002912. ACT_dom.
IPR006139. D-isomer_2_OHA_DH_cat_dom.
IPR029753. D-isomer_DH_CS.
IPR029752. D-isomer_DH_CS1.
IPR006140. D-isomer_DH_NAD-bd.
IPR016040. NAD(P)-bd_dom.
IPR029015. PGDH_2.
[Graphical view]
PANTHERiPTHR10996:SF18. PTHR10996:SF18. 1 hit.
PfamiPF00389. 2-Hacid_dh. 1 hit.
PF02826. 2-Hacid_dh_C. 1 hit.
PF01842. ACT. 1 hit.
[Graphical view]
PROSITEiPS51671. ACT. 1 hit.
PS00065. D_2_HYDROXYACID_DH_1. 1 hit.
PS00670. D_2_HYDROXYACID_DH_2. 1 hit.
PS00671. D_2_HYDROXYACID_DH_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0A9T0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAKVSLEKDK IKFLLVEGVH QKALESLRAA GYTNIEFHKG ALDDEQLKES
60 70 80 90 100
IRDAHFIGLR SRTHLTEDVI NAAEKLVAIG CFCIGTNQVD LDAAAKRGIP
110 120 130 140 150
VFNAPFSNTR SVAELVIGEL LLLLRGVPEA NAKAHRGVWN KLAAGSFEAR
160 170 180 190 200
GKKLGIIGYG HIGTQLGILA ESLGMYVYFY DIENKLPLGN ATQVQHLSDL
210 220 230 240 250
LNMSDVVSLH VPENPSTKNM MGAKEISLMK PGSLLINASR GTVVDIPALC
260 270 280 290 300
DALASKHLAG AAIDVFPTEP ATNSDPFTSP LCEFDNVLLT PHIGGSTQEA
310 320 330 340 350
QENIGLEVAG KLIKYSDNGS TLSAVNFPEV SLPLHGGRRL MHIHENRPGV
360 370 380 390 400
LTALNKIFAE QGVNIAAQYL QTSAQMGYVV IDIEADEDVA EKALQAMKAI
410
PGTIRARLLY
Length:410
Mass (Da):44,176
Last modified:January 23, 2007 - v2
Checksum:i61EF5EFC304DF6F0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L29397 Genomic DNA. Translation: AAA24625.1.
U28377 Genomic DNA. Translation: AAA69080.1.
U00096 Genomic DNA. Translation: AAC75950.1.
AP009048 Genomic DNA. Translation: BAE76977.1.
X66836 Genomic DNA. Translation: CAA47308.1.
M64630 Genomic DNA. Translation: AAA73016.1.
PIRiA25200. DEECPG.
RefSeqiNP_417388.1. NC_000913.3.
YP_491113.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC75950; AAC75950; b2913.
BAE76977; BAE76977; BAE76977.
GeneIDi12932179.
945258.
KEGGiecj:Y75_p2844.
eco:b2913.
PATRICi32121238. VBIEscCol129921_3007.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L29397 Genomic DNA. Translation: AAA24625.1 .
U28377 Genomic DNA. Translation: AAA69080.1 .
U00096 Genomic DNA. Translation: AAC75950.1 .
AP009048 Genomic DNA. Translation: BAE76977.1 .
X66836 Genomic DNA. Translation: CAA47308.1 .
M64630 Genomic DNA. Translation: AAA73016.1 .
PIRi A25200. DEECPG.
RefSeqi NP_417388.1. NC_000913.3.
YP_491113.1. NC_007779.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1PSD X-ray 2.75 A/B 2-410 [» ]
1SC6 X-ray 2.09 A/B/C/D 7-410 [» ]
1YBA X-ray 2.24 A/B/C/D 1-410 [» ]
2P9C X-ray 2.46 A/B 1-410 [» ]
2P9E X-ray 2.60 A/B/C/D 1-410 [» ]
2P9G X-ray 2.80 A/B 1-410 [» ]
2PA3 X-ray 2.74 A 1-410 [» ]
ProteinModelPortali P0A9T0.
SMRi P0A9T0. Positions 5-410.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-10851N.
IntActi P0A9T0. 3 interactions.
STRINGi 511145.b2913.

PTM databases

PhosSitei P0810437.

Proteomic databases

PaxDbi P0A9T0.
PRIDEi P0A9T0.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC75950 ; AAC75950 ; b2913 .
BAE76977 ; BAE76977 ; BAE76977 .
GeneIDi 12932179.
945258.
KEGGi ecj:Y75_p2844.
eco:b2913.
PATRICi 32121238. VBIEscCol129921_3007.

Organism-specific databases

EchoBASEi EB0937.
EcoGenei EG10944. serA.

Phylogenomic databases

eggNOGi COG0111.
HOGENOMi HOG000136696.
InParanoidi P0A9T0.
KOi K00058.
OMAi KFVKYSD.
OrthoDBi EOG6VXFC3.
PhylomeDBi P0A9T0.

Enzyme and pathway databases

UniPathwayi UPA00135 ; UER00196 .
BioCyci EcoCyc:PGLYCDEHYDROG-MONOMER.
ECOL316407:JW2880-MONOMER.
MetaCyc:PGLYCDEHYDROG-MONOMER.
SABIO-RK P0A9T0.

Miscellaneous databases

EvolutionaryTracei P0A9T0.
PROi P0A9T0.

Gene expression databases

Genevestigatori P0A9T0.

Family and domain databases

Gene3Di 3.40.50.720. 2 hits.
InterProi IPR002912. ACT_dom.
IPR006139. D-isomer_2_OHA_DH_cat_dom.
IPR029753. D-isomer_DH_CS.
IPR029752. D-isomer_DH_CS1.
IPR006140. D-isomer_DH_NAD-bd.
IPR016040. NAD(P)-bd_dom.
IPR029015. PGDH_2.
[Graphical view ]
PANTHERi PTHR10996:SF18. PTHR10996:SF18. 1 hit.
Pfami PF00389. 2-Hacid_dh. 1 hit.
PF02826. 2-Hacid_dh_C. 1 hit.
PF01842. ACT. 1 hit.
[Graphical view ]
PROSITEi PS51671. ACT. 1 hit.
PS00065. D_2_HYDROXYACID_DH_1. 1 hit.
PS00670. D_2_HYDROXYACID_DH_2. 1 hit.
PS00671. D_2_HYDROXYACID_DH_3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of the serA gene of Escherichia coli and the amino acid sequence of the encoded protein, D-3-phosphoglycerate dehydrogenase."
    Tobey K.L., Grant G.A.
    J. Biol. Chem. 261:12179-12183(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. Roy I., Leadlay P.F.
    Submitted (JUN-1992) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-99.
    Strain: K12.
  5. "The tdh and serA operons of Escherichia coli: mutational analysis of the regulatory elements of leucine-responsive genes."
    Rex J.H., Aronson B.D., Somerville R.L.
    J. Bacteriol. 173:5944-5953(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-29.
    Strain: K12.
  6. "Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12."
    Link A.J., Robison K., Church G.M.
    Electrophoresis 18:1259-1313(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-13.
    Strain: K12 / EMG2.
  7. "Escherichia coli proteome analysis using the gene-protein database."
    VanBogelen R.A., Abshire K.Z., Moldover B., Olson E.R., Neidhardt F.C.
    Electrophoresis 18:1243-1251(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY 2D-GEL.
  8. "The allosteric ligand site in the Vmax-type cooperative enzyme phosphoglycerate dehydrogenase."
    Schuller D.J., Grant G.A., Banaszak L.J.
    Nat. Struct. Biol. 2:69-76(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.75 ANGSTROMS).

Entry informationi

Entry nameiSERA_ECOLI
AccessioniPrimary (citable) accession number: P0A9T0
Secondary accession number(s): P08328, Q2M9S9, Q47633
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: January 23, 2007
Last modified: November 26, 2014
This is version 93 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3