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Protein

NAD-dependent L-serine dehydrogenase

Gene

PA0743

Organism
Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

NAD-dependent L-serine dehydrogenase that catalyzes the oxidation of L-serine and methyl-L-serine and is possibly involved in serine catabolism. Has low activity toward beta-hydroxyisobutyrate.1 Publication

Catalytic activityi

L-serine + NAD+ = 2-aminoacetaldehyde + CO2 + NADH.1 Publication

Kineticsi

kcat is 10.4 sec(-1) with L-serine as substrate. kcat is 9.6 sec(-1) with methyl-DL-serine as substrate. kcat is 5.8 sec(-1) with DL-glycerate as substrate. kcat is 11.6 sec(-1) with methyl-2,2-dimethyl-3-hydroxypropionate as substrate. kcat is 1.6 sec(-1) with NAD as substrate.

  1. KM=2.5 mM for L-serine1 Publication
  2. KM=2.4 mM for methyl-DL-serine1 Publication
  3. KM=19.8 mM for DL-glycerate1 Publication
  4. KM=17.4 mM for methyl-2,2-dimethyl-3-hydroxypropionate1 Publication
  5. KM=3.4 mM for NAD1 Publication
  1. Vmax=18.7 µmol/min/mg enzyme with L-serine as substrate1 Publication
  2. Vmax=17.2 µmol/min/mg enzyme with methyl-DL-serine as substrate1 Publication
  3. Vmax=10.4 µmol/min/mg enzyme with DL-glycerate as substrate1 Publication
  4. Vmax=20.9 µmol/min/mg enzyme with methyl-2,2-dimethyl-3-hydroxypropionate as substrate1 Publication
  5. Vmax=2.8 µmol/min/mg enzyme with NAD as substrate1 Publication

Pathwayi: Amino-acid degradation

This protein is involved in Amino-acid degradation.
View all proteins of this organism that are known to be involved in Amino-acid degradation.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei66 – 661NAD; via carbonyl oxygen1 Publication
Binding sitei96 – 961NAD; via amide nitrogen1 Publication
Active sitei171 – 17111 Publication
Binding sitei246 – 2461NAD1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi2 – 3130NAD1 PublicationAdd
BLAST
Nucleotide bindingi65 – 662NADBy similarity

GO - Molecular functioni

GO - Biological processi

  • branched-chain amino acid catabolic process Source: UniProtKB-KW
  • L-serine catabolic process Source: UniProtKB
  • protein homotetramerization Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Branched-chain amino acid catabolism

Keywords - Ligandi

NAD, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
NAD-dependent L-serine dehydrogenase (EC:1.1.1.3871 Publication)
Alternative name(s):
L-serine 3-dehydrogenase (NAD(+))
Gene namesi
Ordered Locus Names:PA0743
OrganismiPseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
Taxonomic identifieri208964 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
Proteomesi
  • UP000002438 Componenti: Chromosome

Organism-specific databases

PseudoCAPiPA0743.

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi96 – 961T → A: Almost abolished activity. 1 Publication
Mutagenesisi122 – 1221S → A: Strongly reduced activity. 1 Publication
Mutagenesisi171 – 1711K → A: Strongly reduced activity.
Mutagenesisi175 – 1751N → A: Strongly reduced activity. 1 Publication
Mutagenesisi214 – 2141W → A: Almost abolished activity. 1 Publication
Mutagenesisi219 – 2191Y → A: Strongly reduced activity. 1 Publication
Mutagenesisi246 – 2461K → A: Almost abolished activity. 1 Publication
Mutagenesisi247 – 2471D → A: Almost abolished activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 298298NAD-dependent L-serine dehydrogenasePRO_0000429132Add
BLAST

Proteomic databases

PaxDbiQ9I5I6.

Interactioni

Subunit structurei

Homotetramer, dimer of dimers.1 Publication

Protein-protein interaction databases

STRINGi208964.PA0743.

Structurei

Secondary structure

1
298
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 75Combined sources
Helixi13 – 2210Combined sources
Beta strandi26 – 305Combined sources
Helixi34 – 429Combined sources
Helixi51 – 555Combined sources
Beta strandi59 – 635Combined sources
Helixi68 – 769Combined sources
Beta strandi77 – 815Combined sources
Beta strandi90 – 934Combined sources
Helixi99 – 11012Combined sources
Turni111 – 1133Combined sources
Beta strandi115 – 1184Combined sources
Beta strandi121 – 1233Combined sources
Helixi125 – 1306Combined sources
Beta strandi133 – 1397Combined sources
Helixi141 – 15414Combined sources
Beta strandi155 – 1639Combined sources
Helixi166 – 19429Combined sources
Helixi199 – 2079Combined sources
Helixi214 – 2185Combined sources
Turni223 – 2253Combined sources
Helixi230 – 2334Combined sources
Beta strandi237 – 2404Combined sources
Helixi241 – 25818Combined sources
Helixi263 – 27715Combined sources
Helixi285 – 2884Combined sources
Helixi289 – 2924Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3OBBX-ray2.20A1-298[»]
3Q3CX-ray2.30A1-298[»]
ProteinModelPortaliQ9I5I6.
SMRiQ9I5I6. Positions 1-296.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9I5I6.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105CF3. Bacteria.
COG2084. LUCA.
HOGENOMiHOG000219610.
InParanoidiQ9I5I6.
KOiK19711.
OMAiNIVHCGE.
PhylomeDBiQ9I5I6.

Family and domain databases

Gene3Di1.10.1040.10. 1 hit.
3.40.50.720. 1 hit.
InterProiIPR002204. 3-OH-isobutyrate_DH-rel_CS.
IPR008927. 6-PGluconate_DH_C-like.
IPR013328. 6PGD_dom_2.
IPR006115. 6PGDH_NADP-bd.
IPR011548. HIBADH.
IPR015815. HIBADH-related.
IPR016040. NAD(P)-bd_dom.
IPR029154. NADP-bd.
[Graphical view]
PfamiPF14833. NAD_binding_11. 1 hit.
PF03446. NAD_binding_2. 1 hit.
[Graphical view]
PIRSFiPIRSF000103. HIBADH. 1 hit.
SUPFAMiSSF48179. SSF48179. 1 hit.
SSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01692. HIBADH. 1 hit.
PROSITEiPS00895. 3_HYDROXYISOBUT_DH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9I5I6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKQIAFIGLG HMGAPMATNL LKAGYLLNVF DLVQSAVDGL VAAGASAARS
60 70 80 90 100
ARDAVQGADV VISMLPASQH VEGLYLDDDG LLAHIAPGTL VLECSTIAPT
110 120 130 140 150
SARKIHAAAR ERGLAMLDAP VSGGTAGAAA GTLTFMVGGD AEALEKARPL
160 170 180 190 200
FEAMGRNIFH AGPDGAGQVA KVCNNQLLAV LMIGTAEAMA LGVANGLEAK
210 220 230 240 250
VLAEIMRRSS GGNWALEVYN PWPGVMENAP ASRDYSGGFM AQLMAKDLGL
260 270 280 290
AQEAAQASAS STPMGSLALS LYRLLLKQGY AERDFSVVQK LFDPTQGQ
Length:298
Mass (Da):30,754
Last modified:March 1, 2001 - v1
Checksum:i27100627BEBB469C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE004091 Genomic DNA. Translation: AAG04132.1.
PIRiB83553.
RefSeqiNP_249434.1. NC_002516.2.
WP_003114168.1. NC_002516.2.

Genome annotation databases

EnsemblBacteriaiAAG04132; AAG04132; PA0743.
GeneIDi882135.
KEGGipae:PA0743.
PATRICi19835758. VBIPseAer58763_0772.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE004091 Genomic DNA. Translation: AAG04132.1.
PIRiB83553.
RefSeqiNP_249434.1. NC_002516.2.
WP_003114168.1. NC_002516.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3OBBX-ray2.20A1-298[»]
3Q3CX-ray2.30A1-298[»]
ProteinModelPortaliQ9I5I6.
SMRiQ9I5I6. Positions 1-296.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi208964.PA0743.

Proteomic databases

PaxDbiQ9I5I6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAG04132; AAG04132; PA0743.
GeneIDi882135.
KEGGipae:PA0743.
PATRICi19835758. VBIPseAer58763_0772.

Organism-specific databases

PseudoCAPiPA0743.

Phylogenomic databases

eggNOGiENOG4105CF3. Bacteria.
COG2084. LUCA.
HOGENOMiHOG000219610.
InParanoidiQ9I5I6.
KOiK19711.
OMAiNIVHCGE.
PhylomeDBiQ9I5I6.

Miscellaneous databases

EvolutionaryTraceiQ9I5I6.

Family and domain databases

Gene3Di1.10.1040.10. 1 hit.
3.40.50.720. 1 hit.
InterProiIPR002204. 3-OH-isobutyrate_DH-rel_CS.
IPR008927. 6-PGluconate_DH_C-like.
IPR013328. 6PGD_dom_2.
IPR006115. 6PGDH_NADP-bd.
IPR011548. HIBADH.
IPR015815. HIBADH-related.
IPR016040. NAD(P)-bd_dom.
IPR029154. NADP-bd.
[Graphical view]
PfamiPF14833. NAD_binding_11. 1 hit.
PF03446. NAD_binding_2. 1 hit.
[Graphical view]
PIRSFiPIRSF000103. HIBADH. 1 hit.
SUPFAMiSSF48179. SSF48179. 1 hit.
SSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01692. HIBADH. 1 hit.
PROSITEiPS00895. 3_HYDROXYISOBUT_DH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSERDH_PSEAE
AccessioniPrimary (citable) accession number: Q9I5I6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 14, 2014
Last sequence update: March 1, 2001
Last modified: September 7, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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

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 one 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.