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P58719

- PDXA_YERPE

UniProt

P58719 - PDXA_YERPE

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Protein
4-hydroxythreonine-4-phosphate dehydrogenase
Gene
pdxA, YPO0493, y3682, YP_3686
Organism
Yersinia pestis
Status
Reviewed - Annotation score: 4 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) By similarity.UniRule annotation

Catalytic activityi

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

Cofactori

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

Pathwayi

Sites

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

GO - Molecular functioni

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

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 dehydrogenase (EC:1.1.1.262)
Alternative name(s):
4-(phosphohydroxy)-L-threonine dehydrogenase
Gene namesi
Name:pdxA
Ordered Locus Names:YPO0493, y3682, YP_3686
OrganismiYersinia pestis
Taxonomic identifieri632 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000000815: Chromosome, UP000001019: Chromosome, UP000002490: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 3313314-hydroxythreonine-4-phosphate dehydrogenaseUniRule annotation
PRO_0000188841Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi214092.YPO0493.

Structurei

Secondary structure

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

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.

Miscellaneous databases

EvolutionaryTraceiP58719.

Family & Domainsi

Sequence similaritiesi

Belongs to the PdxA family.

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

MHNHNNRLVI TPGEPAGVGP DLAITLAQQD WPVELVVCAD PALLLARASQ    50
LNLPLQLREY QADQPAIAQQ AGSLTILPVK TAVNVVPGKL DVGNSHYVVE 100
TLAKACDGAI SGEFAALVTG PVQKSIINDA GIPFIGHTEF FADRSHCQRV 150
VMMLATEELR VALATTHLPL LAVPGAITQA SLHEVITILD NDLKTKFGIT 200
QPQIYVCGLN PHAGEGGHMG HEEIDTIIPA LNTLRQQGIN LIGPLPADTL 250
FQPKYLQHAD AVLAMYHDQG LPVLKYQGFG RAVNITLGLP FIRTSVDHGT 300
ALELAATGTA DVGSFITALN LAIKMINNSN E 331
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...

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: May 14, 2014
This is version 96 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 By similarity.

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

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