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Protein

LL-diaminopimelate aminotransferase

Gene

dapL

Organism
Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) (Methanobacterium thermoautotrophicum)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Involved in the synthesis of meso-diaminopimelate (m-DAP or DL-DAP), required for both lysine and peptidoglycan biosynthesis. Catalyzes the direct conversion of tetrahydrodipicolinate to LL-diaminopimelate. Is also able to catalyze the reverse reaction in vitro, i.e. the transamination of LL-diaminopimelate with 2-oxoglutarate to produce 2-oxo-6-aminopimelate (in equilibrium with tetrahydrodipicolinate) and glutamate. Has maximal aminotransferase activity using 2-oxoglutarate as an amino group acceptor, and cannot use oxaloacetate instead of 2-oxoglutarate, although 2-oxoadipate can substitute with 21% relative activity. Cannot use m-DAP, lysine or ornithine as the amino-group donor, when using 2-oxoglutarate as the amino-group acceptor.2 Publications

Catalytic activityi

LL-2,6-diaminoheptanedioate + 2-oxoglutarate = (S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + L-glutamate + H2O.UniRule annotation2 Publications

Cofactori

pyridoxal 5'-phosphateUniRule annotation1 Publication

Kineticsi

  1. KM=82 µM for LL-2,6-diaminopimelate1 Publication
  2. KM=7.8 µM for L-2,3,4,5-tetrahydrodipicolinate1 Publication
  3. KM=2.6 mM for 2-oxoglutarate1 Publication
  4. KM=1.1 mM for glutamate1 Publication
  1. Vmax=6.3 µmol/min/mg enzyme for the forward reaction (tetrahydrodipicolinate synthesis)1 Publication
  2. Vmax=0.100 µmol/min/mg enzyme for the reverse reaction (LL-DAP synthesis)1 Publication

Pathwayi: L-lysine biosynthesis via DAP pathway

This protein is involved in step 1 of the subpathway that synthesizes LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (aminotransferase route).UniRule annotation2 Publications
Proteins known to be involved in this subpathway in this organism are:
  1. LL-diaminopimelate aminotransferase (dapL)
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 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (aminotransferase route), the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei15SubstrateUniRule annotation1
Binding sitei42Substrate; via amide nitrogenUniRule annotation1
Binding sitei72Pyridoxal phosphateUniRule annotation1
Binding sitei109SubstrateUniRule annotation1
Binding sitei132Pyridoxal phosphateUniRule annotation1
Binding sitei132SubstrateUniRule annotation1
Binding sitei187Pyridoxal phosphateUniRule annotation1
Binding sitei187SubstrateUniRule annotation1
Binding sitei218Pyridoxal phosphateUniRule annotation1
Binding sitei257Pyridoxal phosphateUniRule annotation1
Binding sitei292Pyridoxal phosphateUniRule annotation1
Binding sitei292SubstrateUniRule annotation1
Binding sitei388SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionAminotransferase, Transferase
LigandPyridoxal phosphate

Enzyme and pathway databases

BioCyciMTHE187420:G1G16-52-MONOMER
BRENDAi2.6.1.83 3256
SABIO-RKiO26158
UniPathwayi
UPA00034;UER00466

Names & Taxonomyi

Protein namesi
Recommended name:
LL-diaminopimelate aminotransferase1 PublicationUniRule annotation (EC:2.6.1.83UniRule annotation2 Publications)
Short name:
DAP-AT1 PublicationUniRule annotation
Short name:
DAP-aminotransferase1 PublicationUniRule annotation
Short name:
LL-DAP-aminotransferase1 PublicationUniRule annotation
Gene namesi
Name:dapLUniRule annotation
Ordered Locus Names:MTH_52
OrganismiMethanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) (Methanobacterium thermoautotrophicum)
Taxonomic identifieri187420 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanomada groupMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanothermobacter
Proteomesi
  • UP000005223 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003422561 – 410LL-diaminopimelate aminotransferaseAdd BLAST410

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei249N6-(pyridoxal phosphate)lysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi187420.MTH52

Structurei

3D structure databases

ProteinModelPortaliO26158
SMRiO26158
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni108 – 109Pyridoxal phosphate bindingUniRule annotation2
Regioni246 – 248Pyridoxal phosphate bindingUniRule annotation3

Sequence similaritiesi

Phylogenomic databases

eggNOGiarCOG01133 Archaea
COG0436 LUCA
KOiK10206
OMAiTGTRCAF
OrthoDBiPOG093Z02MQ

Family and domain databases

Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 2 hits
HAMAPiMF_01642 DapL_aminotrans_1, 1 hit
InterProiView protein in InterPro
IPR004839 Aminotransferase_I/II
IPR019942 DapL/ALD1
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
PANTHERiPTHR43144 PTHR43144, 1 hit
PfamiView protein in Pfam
PF00155 Aminotran_1_2, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
TIGRFAMsiTIGR03542 DAPAT_plant, 1 hit

Sequencei

Sequence statusi: Complete.

O26158-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MVTVNENYLL LKSSYIFSEI NRRVEEFQRK NPDADIIRMG IGDVTRPLPE
60 70 80 90 100
AVVEAFHRAV DEMAEEETFR GYGPEQGYPF LREAIAENDY ASRGVDITAD
110 120 130 140 150
EIFISDGAKC DTGNIQEIFG LDNVVAVTDP VYPVYVESNV MAGRAGPADD
160 170 180 190 200
DGRYSGLVYL PCTEENSFIP SLPEERVDLI YLCYPNNPTG TTLTEKQLAE
210 220 230 240 250
WVDYARDSGS LILFDAAYEA YIQEDGIPHS IYEVEGAREV AIEFRSFSKN
260 270 280 290 300
AGFTGTRCAF TVVPEELEVP DSSGRMHSVR ELWNRRQTTK FNGVSYPVQR
310 320 330 340 350
AAEAVYTPEG QREIRESIDY YMENARIIRE SLERAGLRYY GGVNAPYIWI
360 370 380 390 400
RTPEGMDSWQ FFDTLLNDAE VVGTPGSGFG PSGEGYFRLT AFNSFRNTVK
410
AMERISELSF
Length:410
Mass (Da):46,213
Last modified:January 1, 1998 - v1
Checksum:iA9B03194E73DED5B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000666 Genomic DNA Translation: AAB84559.1
PIRiE69168
RefSeqiWP_010875692.1, NC_000916.1

Genome annotation databases

EnsemblBacteriaiAAB84559; AAB84559; MTH_52
GeneIDi1470014
KEGGimth:MTH_52
PATRICifig|187420.15.peg.50

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000666 Genomic DNA Translation: AAB84559.1
PIRiE69168
RefSeqiWP_010875692.1, NC_000916.1

3D structure databases

ProteinModelPortaliO26158
SMRiO26158
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi187420.MTH52

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB84559; AAB84559; MTH_52
GeneIDi1470014
KEGGimth:MTH_52
PATRICifig|187420.15.peg.50

Phylogenomic databases

eggNOGiarCOG01133 Archaea
COG0436 LUCA
KOiK10206
OMAiTGTRCAF
OrthoDBiPOG093Z02MQ

Enzyme and pathway databases

UniPathwayi
UPA00034;UER00466

BioCyciMTHE187420:G1G16-52-MONOMER
BRENDAi2.6.1.83 3256
SABIO-RKiO26158

Family and domain databases

Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 2 hits
HAMAPiMF_01642 DapL_aminotrans_1, 1 hit
InterProiView protein in InterPro
IPR004839 Aminotransferase_I/II
IPR019942 DapL/ALD1
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
PANTHERiPTHR43144 PTHR43144, 1 hit
PfamiView protein in Pfam
PF00155 Aminotran_1_2, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
TIGRFAMsiTIGR03542 DAPAT_plant, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiDAPAT_METTH
AccessioniPrimary (citable) accession number: O26158
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: January 1, 1998
Last modified: October 10, 2018
This is version 110 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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