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Protein

4-hydroxy-tetrahydrodipicolinate reductase

Gene

dapB

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the conversion of 4-hydroxy-tetrahydrodipicolinate (HTPA) to tetrahydrodipicolinate.UniRule annotation

Catalytic activityi

(S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + NAD(P)+ + H2O = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + NAD(P)H.UniRule annotation

Pathwayi: L-lysine biosynthesis via DAP pathway

This protein is involved in step 4 of the subpathway that synthesizes (S)-tetrahydrodipicolinate from L-aspartate.UniRule annotation
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. Aspartokinase (ask)
  2. Aspartate-semialdehyde dehydrogenase (asd)
  3. 4-hydroxy-tetrahydrodipicolinate synthase (dapA)
  4. 4-hydroxy-tetrahydrodipicolinate reductase (dapB)
This subpathway is part of the pathway L-lysine biosynthesis via DAP pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes (S)-tetrahydrodipicolinate from L-aspartate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei132 – 1321Proton donor/acceptorUniRule annotation
Binding sitei133 – 1331SubstrateUniRule annotation
Active sitei136 – 1361Proton donorUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi7 – 126NAD(P)UniRule annotation
Nucleotide bindingi75 – 773NAD(P)UniRule annotation
Nucleotide bindingi102 – 1054NAD(P)UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Amino-acid biosynthesis, Diaminopimelate biosynthesis, Lysine biosynthesis

Keywords - Ligandi

NAD, NADP

Enzyme and pathway databases

BioCyciMSME246196:GJ4Y-2664-MONOMER.
UniPathwayiUPA00034; UER00018.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxy-tetrahydrodipicolinate reductaseUniRule annotation (EC:1.17.1.8UniRule annotation)
Short name:
HTPA reductaseUniRule annotation
Gene namesi
Name:dapBUniRule annotation
Ordered Locus Names:MSMEG_2664, MSMEI_2600
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000006158 Componenti: Chromosome
  • UP000000757 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2452454-hydroxy-tetrahydrodipicolinate reductasePRO_1000008597Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi246196.MSMEG_2664.

Structurei

3D structure databases

ProteinModelPortaliA0QVR3.
SMRiA0QVR3. Positions 1-244.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni142 – 1432Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the DapB family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105DUK. Bacteria.
COG0289. LUCA.
HOGENOMiHOG000227154.
KOiK00215.
OMAiIEEYPKK.
OrthoDBiPOG091H01P6.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00102. DapB. 1 hit.
InterProiIPR022663. DapB_C.
IPR000846. DapB_N.
IPR022664. DapB_N_CS.
IPR023940. DHDPR_bac.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR20836. PTHR20836. 1 hit.
PfamiPF05173. DapB_C. 1 hit.
PF01113. DapB_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000161. DHPR. 1 hit.
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR00036. dapB. 1 hit.
PROSITEiPS01298. DAPB. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A0QVR3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRVGVLGARG KVGATMVAAV EAAEDLTFSA GVDAGDDLSL LTESKTEVVI
60 70 80 90 100
DFTHPDVVMD NLKFVIDNGI HAVVGTTGFT WERIEQVEAW VKAKPGASVL
110 120 130 140 150
IAPNFAIGAV LSMHFAKQAA KYFESVEIIE LHHPHKADAP SGTAARTAKL
160 170 180 190 200
IAEARKGLPP NPDATSTGLD GARGADVDGI PVHSVRLAGL VAHQEVLFGT
210 220 230 240
QGETLTIRHD SLDRTSFVPG VLLAVRKISG LQGLTVGIEP LLDLS
Length:245
Mass (Da):25,710
Last modified:January 9, 2007 - v1
Checksum:i4AAB4A4C9832612A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK71521.1.
CP001663 Genomic DNA. Translation: AFP39068.1.
RefSeqiWP_011728512.1. NZ_CP009494.1.
YP_887001.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK71521; ABK71521; MSMEG_2664.
AFP39068; AFP39068; MSMEI_2600.
GeneIDi4535928.
KEGGimsb:LJ00_13260.
msg:MSMEI_2600.
msm:MSMEG_2664.
PATRICi18077756. VBIMycSme59918_2630.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK71521.1.
CP001663 Genomic DNA. Translation: AFP39068.1.
RefSeqiWP_011728512.1. NZ_CP009494.1.
YP_887001.1. NC_008596.1.

3D structure databases

ProteinModelPortaliA0QVR3.
SMRiA0QVR3. Positions 1-244.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi246196.MSMEG_2664.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK71521; ABK71521; MSMEG_2664.
AFP39068; AFP39068; MSMEI_2600.
GeneIDi4535928.
KEGGimsb:LJ00_13260.
msg:MSMEI_2600.
msm:MSMEG_2664.
PATRICi18077756. VBIMycSme59918_2630.

Phylogenomic databases

eggNOGiENOG4105DUK. Bacteria.
COG0289. LUCA.
HOGENOMiHOG000227154.
KOiK00215.
OMAiIEEYPKK.
OrthoDBiPOG091H01P6.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00018.
BioCyciMSME246196:GJ4Y-2664-MONOMER.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00102. DapB. 1 hit.
InterProiIPR022663. DapB_C.
IPR000846. DapB_N.
IPR022664. DapB_N_CS.
IPR023940. DHDPR_bac.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR20836. PTHR20836. 1 hit.
PfamiPF05173. DapB_C. 1 hit.
PF01113. DapB_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000161. DHPR. 1 hit.
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR00036. dapB. 1 hit.
PROSITEiPS01298. DAPB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDAPB_MYCS2
AccessioniPrimary (citable) accession number: A0QVR3
Secondary accession number(s): I7FJY8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: January 9, 2007
Last modified: September 7, 2016
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Caution

Was originally thought to be a dihydrodipicolinate reductase (DHDPR), catalyzing the conversion of dihydrodipicolinate to tetrahydrodipicolinate. However, it was shown in E.coli that the substrate of the enzymatic reaction is not dihydrodipicolinate (DHDP) but in fact (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinic acid (HTPA), the product released by the DapA-catalyzed reaction.Curated

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.