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P58719

- PDXA_YERPE

UniProt

P58719 - PDXA_YERPE

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Protein

4-hydroxythreonine-4-phosphate dehydrogenase

Gene

pdxA

Organism
Yersinia pestis
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

Functioni

Catalyzes the NAD(P)-dependent oxidation of 4-(phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP).UniRule annotation

Catalytic activityi

4-phosphonooxy-L-threonine + NAD+ = 3-amino-2-oxopropyl phosphate + CO2 + NADH.

Cofactori

Binds 1 divalent metal cation per subunit. Can use ions such as zinc, magnesium or cobalt.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei137 – 1371SubstrateUniRule annotation
Binding sitei138 – 1381SubstrateUniRule annotation
Metal bindingi167 – 1671Divalent metal cation; shared with dimeric partnerUniRule annotation
Metal bindingi212 – 2121Divalent metal cation; shared with dimeric partnerUniRule annotation
Metal bindingi267 – 2671Divalent metal cation; shared with dimeric partnerUniRule annotation
Binding sitei275 – 2751SubstrateUniRule annotation
Binding sitei284 – 2841SubstrateUniRule annotation
Binding sitei293 – 2931SubstrateUniRule annotation

GO - Molecular functioni

  1. 4-hydroxythreonine-4-phosphate dehydrogenase activity Source: UniProtKB-HAMAP
  2. cobalt ion binding Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. NAD binding Source: InterPro
  5. zinc ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. pyridoxal phosphate biosynthetic process Source: UniProtKB-HAMAP
  2. pyridoxine biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Pyridoxine biosynthesis

Keywords - Ligandi

Cobalt, Magnesium, Metal-binding, NAD, NADP, Zinc

Enzyme and pathway databases

BioCyciYPES214092:GKDD-489-MONOMER.
UniPathwayiUPA00244; UER00312.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxythreonine-4-phosphate dehydrogenaseUniRule annotation (EC:1.1.1.262UniRule annotation)
Alternative name(s):
4-(phosphohydroxy)-L-threonine dehydrogenaseUniRule annotation
Gene namesi
Name:pdxAUniRule annotation
Ordered Locus Names:YPO0493, y3682, YP_3686
OrganismiYersinia pestis
Taxonomic identifieri632 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000000815: Chromosome, UP000001019: Chromosome, UP000002490: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 3313314-hydroxythreonine-4-phosphate dehydrogenasePRO_0000188841Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi214092.YPO0493.

Structurei

Secondary structure

1
331
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi6 – 116Combined sources
Helixi19 – 268Combined sources
Beta strandi32 – 398Combined sources
Helixi41 – 5010Combined sources
Beta strandi56 – 594Combined sources
Beta strandi73 – 786Combined sources
Helixi92 – 943Combined sources
Helixi95 – 11117Combined sources
Beta strandi112 – 1154Combined sources
Beta strandi117 – 1193Combined sources
Helixi124 – 1296Combined sources
Helixi137 – 1459Combined sources
Beta strandi151 – 1566Combined sources
Beta strandi159 – 1657Combined sources
Helixi170 – 1723Combined sources
Helixi173 – 1764Combined sources
Helixi179 – 19517Combined sources
Beta strandi204 – 2074Combined sources
Helixi211 – 2177Combined sources
Helixi222 – 2254Combined sources
Helixi227 – 23610Combined sources
Beta strandi241 – 2455Combined sources
Helixi247 – 2504Combined sources
Helixi253 – 2564Combined sources
Beta strandi260 – 2667Combined sources
Helixi267 – 27812Combined sources
Beta strandi283 – 2919Combined sources
Beta strandi293 – 2986Combined sources
Helixi302 – 3043Combined sources
Turni305 – 3073Combined sources
Helixi313 – 32816Combined sources

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3LXYX-ray1.70A1-331[»]
ProteinModelPortaliP58719.
SMRiP58719. Positions 7-329.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP58719.

Family & Domainsi

Sequence similaritiesi

Belongs to the PdxA family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1995.
HOGENOMiHOG000221592.
KOiK00097.
OMAiDTLFQDK.
OrthoDBiEOG6GN6ZC.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
HAMAPiMF_00536. PdxA.
InterProiIPR024084. IsoPropMal-DH-like_dom.
IPR005255. PdxA.
[Graphical view]
PfamiPF04166. PdxA. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00557. pdxA. 1 hit.

Sequencei

Sequence statusi: Complete.

P58719-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MHNHNNRLVI TPGEPAGVGP DLAITLAQQD WPVELVVCAD PALLLARASQ
60 70 80 90 100
LNLPLQLREY QADQPAIAQQ AGSLTILPVK TAVNVVPGKL DVGNSHYVVE
110 120 130 140 150
TLAKACDGAI SGEFAALVTG PVQKSIINDA GIPFIGHTEF FADRSHCQRV
160 170 180 190 200
VMMLATEELR VALATTHLPL LAVPGAITQA SLHEVITILD NDLKTKFGIT
210 220 230 240 250
QPQIYVCGLN PHAGEGGHMG HEEIDTIIPA LNTLRQQGIN LIGPLPADTL
260 270 280 290 300
FQPKYLQHAD AVLAMYHDQG LPVLKYQGFG RAVNITLGLP FIRTSVDHGT
310 320 330
ALELAATGTA DVGSFITALN LAIKMINNSN E
Length:331
Mass (Da):35,270
Last modified:January 31, 2002 - v1
Checksum:i9E7675F0F7D64349
GO

Sequence cautioni

The sequence AAM87230.1 differs from that shown. Reason: Erroneous initiation.
The sequence AAS63834.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AL590842 Genomic DNA. Translation: CAL19173.1.
AE009952 Genomic DNA. Translation: AAM87230.1. Different initiation.
AE017042 Genomic DNA. Translation: AAS63834.1. Different initiation.
PIRiAC0061.
RefSeqiNP_670979.1. NC_004088.1.
NP_994957.1. NC_005810.1.
YP_002345566.1. NC_003143.1.

Genome annotation databases

EnsemblBacteriaiAAM87230; AAM87230; y3682.
AAS63834; AAS63834; YP_3686.
GeneIDi1148629.
1173338.
2764303.
KEGGiype:YPO0493.
ypk:y3682.
ypm:YP_3686.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AL590842 Genomic DNA. Translation: CAL19173.1 .
AE009952 Genomic DNA. Translation: AAM87230.1 . Different initiation.
AE017042 Genomic DNA. Translation: AAS63834.1 . Different initiation.
PIRi AC0061.
RefSeqi NP_670979.1. NC_004088.1.
NP_994957.1. NC_005810.1.
YP_002345566.1. NC_003143.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3LXY X-ray 1.70 A 1-331 [» ]
ProteinModelPortali P58719.
SMRi P58719. Positions 7-329.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 214092.YPO0493.

Protocols and materials databases

DNASUi 1148629.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAM87230 ; AAM87230 ; y3682 .
AAS63834 ; AAS63834 ; YP_3686 .
GeneIDi 1148629.
1173338.
2764303.
KEGGi ype:YPO0493.
ypk:y3682.
ypm:YP_3686.

Phylogenomic databases

eggNOGi COG1995.
HOGENOMi HOG000221592.
KOi K00097.
OMAi DTLFQDK.
OrthoDBi EOG6GN6ZC.

Enzyme and pathway databases

UniPathwayi UPA00244 ; UER00312 .
BioCyci YPES214092:GKDD-489-MONOMER.

Miscellaneous databases

EvolutionaryTracei P58719.

Family and domain databases

Gene3Di 3.40.718.10. 1 hit.
HAMAPi MF_00536. PdxA.
InterProi IPR024084. IsoPropMal-DH-like_dom.
IPR005255. PdxA.
[Graphical view ]
Pfami PF04166. PdxA. 1 hit.
[Graphical view ]
TIGRFAMsi TIGR00557. pdxA. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CO-92 / Biovar Orientalis.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: KIM10+ / Biovar Mediaevalis.
  3. "Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans."
    Song Y., Tong Z., Wang J., Wang L., Guo Z., Han Y., Zhang J., Pei D., Zhou D., Qin H., Pang X., Han Y., Zhai J., Li M., Cui B., Qi Z., Jin L., Dai R.
    , Chen F., Li S., Ye C., Du Z., Lin W., Wang J., Yu J., Yang H., Wang J., Huang P., Yang R.
    DNA Res. 11:179-197(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 91001 / Biovar Mediaevalis.

Entry informationi

Entry nameiPDXA_YERPE
AccessioniPrimary (citable) accession number: P58719
Secondary accession number(s): Q0WJH2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 31, 2002
Last sequence update: January 31, 2002
Last modified: October 29, 2014
This is version 98 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The active site is located at the dimer interface.UniRule annotation

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3