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Protein

6-phosphogluconate dehydrogenase, decarboxylating

Gene

gnd

Organism
Aggregatibacter actinomycetemcomitans (Actinobacillus actinomycetemcomitans) (Haemophilus actinomycetemcomitans)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO2, with concomitant reduction of NADP to NADPH.By similarity

Catalytic activityi

6-phospho-D-gluconate + NADP+ = D-ribulose 5-phosphate + CO2 + NADPH.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei104 – 1041NADPBy similarity
Binding sitei104 – 1041SubstrateBy similarity
Active sitei185 – 1851Proton acceptorBy similarity
Active sitei192 – 1921Proton donorBy similarity
Binding sitei193 – 1931SubstrateBy similarity
Binding sitei262 – 2621Substrate; via amide nitrogenBy similarity
Binding sitei289 – 2891SubstrateBy similarity
Binding sitei447 – 4471Substrate; shared with dimeric partnerBy similarity
Binding sitei453 – 4531Substrate; shared with dimeric partnerBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi11 – 166NADPBy similarity
Nucleotide bindingi34 – 363NADPBy similarity
Nucleotide bindingi76 – 783NADPBy similarity

GO - Molecular functioni

  1. NADP binding Source: InterPro
  2. phosphogluconate dehydrogenase (decarboxylating) activity Source: UniProtKB-EC

GO - Biological processi

  1. D-gluconate metabolic process Source: UniProtKB-KW
  2. pentose-phosphate shunt Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Gluconate utilization, Pentose shunt

Keywords - Ligandi

NADP

Enzyme and pathway databases

UniPathwayiUPA00115; UER00410.

Names & Taxonomyi

Protein namesi
Recommended name:
6-phosphogluconate dehydrogenase, decarboxylating (EC:1.1.1.44)
Gene namesi
Name:gnd
OrganismiAggregatibacter actinomycetemcomitans (Actinobacillus actinomycetemcomitans) (Haemophilus actinomycetemcomitans)
Taxonomic identifieri714 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeAggregatibacter

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 4844846-phosphogluconate dehydrogenase, decarboxylatingPRO_0000090024Add
BLAST

Proteomic databases

PRIDEiP70718.

Interactioni

Subunit structurei

Homodimer.By similarity

Structurei

3D structure databases

ProteinModelPortaliP70718.
SMRiP70718. Positions 4-475.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni130 – 1323Substrate bindingBy similarity
Regioni188 – 1892Substrate bindingBy similarity

Sequence similaritiesi

Family and domain databases

Gene3Di1.10.1040.10. 1 hit.
1.20.5.320. 1 hit.
3.40.50.720. 1 hit.
InterProiIPR008927. 6-PGluconate_DH_C-like.
IPR006114. 6PGDH_C.
IPR006113. 6PGDH_decarbox.
IPR006115. 6PGDH_NADP-bd.
IPR006184. 6PGdom_BS.
IPR013328. DH_multihelical.
IPR012284. Fibritin/6PGD_C-extension.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF00393. 6PGD. 1 hit.
PF03446. NAD_binding_2. 1 hit.
[Graphical view]
PIRSFiPIRSF000109. 6PGD. 1 hit.
SUPFAMiSSF48179. SSF48179. 1 hit.
TIGRFAMsiTIGR00873. gnd. 1 hit.
PROSITEiPS00461. 6PGD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P70718-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVKGDIGVI GLAVMGQNLI LNMNDHGFKV VAYNRTTSKV DEFLEGAAKG
60 70 80 90 100
TNIIGAYSLE DLANKLEKPR KVMLMVRAGE VVDHFIDALL PHLEAGDIII
110 120 130 140 150
DGGNSNYPDT NRRVAALREK GIRFIGTGVS GGEEGARHGP SIMPGGNEEA
160 170 180 190 200
WQFVKPVLQA ISAKTEQGEP CCDWVGKDGA GHFVKMVHNG IEYGDMQLIC
210 220 230 240 250
EAYQFLKEGV GLSDDELQAT FNEWRNTELD SYLIDITADI LGYKDADGSR
260 270 280 290 300
LVDKVLDTAG QKGTGKWTGI NALDFGIPLT LITESVFARC VSAFKDQRVA
310 320 330 340 350
ASKLFHKTIG KVEGDKKVWI EAVRKALLAS KIISYAQGFM LIREASEHFN
360 370 380 390 400
WNINYGNTAL LWREGCIIRS RFLGNIRDAY EANPDLIFLG SDSYFKGILE
410 420 430 440 450
NAMSDWRKVV AKSIEVGIPM PCMASAITFL DGYTSARLPA NLLQAQRDYF
460 470 480
GAHTYERTDK PRGEFFHTNW TGRGGNTAST TYDV
Length:484
Mass (Da):53,289
Last modified:February 1, 1997 - v1
Checksum:iF7BD0B2EA3BF624D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D88189 Genomic DNA. Translation: BAA13558.1.
PIRiJC5282.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D88189 Genomic DNA. Translation: BAA13558.1.
PIRiJC5282.

3D structure databases

ProteinModelPortaliP70718.
SMRiP70718. Positions 4-475.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiP70718.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

UniPathwayiUPA00115; UER00410.

Family and domain databases

Gene3Di1.10.1040.10. 1 hit.
1.20.5.320. 1 hit.
3.40.50.720. 1 hit.
InterProiIPR008927. 6-PGluconate_DH_C-like.
IPR006114. 6PGDH_C.
IPR006113. 6PGDH_decarbox.
IPR006115. 6PGDH_NADP-bd.
IPR006184. 6PGdom_BS.
IPR013328. DH_multihelical.
IPR012284. Fibritin/6PGD_C-extension.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF00393. 6PGD. 1 hit.
PF03446. NAD_binding_2. 1 hit.
[Graphical view]
PIRSFiPIRSF000109. 6PGD. 1 hit.
SUPFAMiSSF48179. SSF48179. 1 hit.
TIGRFAMsiTIGR00873. gnd. 1 hit.
PROSITEiPS00461. 6PGD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The gnd gene encoding a novel 6-phosphogluconate dehydrogenase and its adjacent region of Actinobacillus actinomycetemcomitans chromosomal DNA."
    Yoshida Y., Nakano Y., Yamashita Y., Koga T.
    Biochem. Biophys. Res. Commun. 230:220-225(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 43718 / FDC Y4 / Serotype b.

Entry informationi

Entry namei6PGD_AGGAC
AccessioniPrimary (citable) accession number: P70718
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: October 1, 2014
This is version 75 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.