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Protein

LL-diaminopimelate aminotransferase

Gene

dapL

Organism
Natranaerobius thermophilus (strain ATCC BAA-1301 / DSM 18059 / JW/NM-WN-LF)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

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.UniRule annotation

Catalytic activityi

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

Cofactori

pyridoxal 5'-phosphateUniRule annotation

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 annotation
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 sitei13SubstrateUniRule annotation1
Binding sitei38Substrate; via amide nitrogenUniRule annotation1
Binding sitei67Pyridoxal phosphateUniRule annotation1
Binding sitei102SubstrateUniRule annotation1
Binding sitei126Pyridoxal phosphateUniRule annotation1
Binding sitei126SubstrateUniRule annotation1
Binding sitei176Pyridoxal phosphateUniRule annotation1
Binding sitei176SubstrateUniRule annotation1
Binding sitei207Pyridoxal phosphateUniRule annotation1
Binding sitei246Pyridoxal phosphateUniRule annotation1
Binding sitei364SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionAminotransferase, Transferase
LigandPyridoxal phosphate

Enzyme and pathway databases

UniPathwayi
UPA00034;UER00466

Names & Taxonomyi

Protein namesi
Recommended name:
LL-diaminopimelate aminotransferaseUniRule annotation (EC:2.6.1.83UniRule annotation)
Short name:
DAP-ATUniRule annotation
Short name:
DAP-aminotransferaseUniRule annotation
Short name:
LL-DAP-aminotransferaseUniRule annotation
Gene namesi
Name:dapLUniRule annotation
Ordered Locus Names:Nther_1272
OrganismiNatranaerobius thermophilus (strain ATCC BAA-1301 / DSM 18059 / JW/NM-WN-LF)
Taxonomic identifieri457570 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaNatranaerobialesNatranaerobiaceaeNatranaerobius
Proteomesi
  • UP000001683 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003422511 – 386LL-diaminopimelate aminotransferaseAdd BLAST386

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei238N6-(pyridoxal phosphate)lysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi457570.Nther_1272

Structurei

3D structure databases

ProteinModelPortaliB2A250
SMRiB2A250
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni101 – 102Pyridoxal phosphate bindingUniRule annotation2
Regioni235 – 237Pyridoxal phosphate bindingUniRule annotation3

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105CHM Bacteria
COG0436 LUCA
HOGENOMiHOG000223051
KOiK10206
OMAiPYAFINP
OrthoDBiPOG091H09WQ

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
IPR004838 NHTrfase_class1_PyrdxlP-BS
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
PfamiView protein in Pfam
PF00155 Aminotran_1_2, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
PROSITEiView protein in PROSITE
PS00105 AA_TRANSFER_CLASS_1, 1 hit

Sequencei

Sequence statusi: Complete.

B2A250-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MQSAHRLNNL PPYLFADLDK MVQKEQAKGK EIIKLGIGDP GMKPPEGIIK
60 70 80 90 100
AATQEMYKGE NHGYPAYDGI DKLKHAIKEY YQSRFGVELN PDREILTLIG
110 120 130 140 150
SKEGIANISQ AILNPGDINF IPDPSYPVYK NGTILAGGTP HSMPLKQDNG
160 170 180 190 200
FIPELESIPQ SRLSKGKIVF MNYPNNPTSA VASKDFYSHA VKFCQKNKLL
210 220 230 240 250
LCNDAAYSEI AFDDYQPQSL LSVPGAKEVA IEFNSLSKTF NMTGWRVGFV
260 270 280 290 300
VGNEKAISAL AKYKTNVDSG VFTPLQLAAT HALENRHEYI PDILKAYKER
310 320 330 340 350
RDLVIEFLEE AGFHVYHPKA TFYVWAQVPG NQDSFNFTKS LLTKTGVVVT
360 370 380
PGIGFGKHGE GYFRIALTVT KDRLKTAMEK ICEYFS
Length:386
Mass (Da):43,000
Last modified:May 20, 2008 - v1
Checksum:i214FB629722BE825
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001034 Genomic DNA Translation: ACB84855.1
RefSeqiWP_012447730.1, NC_010718.1

Genome annotation databases

EnsemblBacteriaiACB84855; ACB84855; Nther_1272
KEGGinth:Nther_1272

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001034 Genomic DNA Translation: ACB84855.1
RefSeqiWP_012447730.1, NC_010718.1

3D structure databases

ProteinModelPortaliB2A250
SMRiB2A250
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi457570.Nther_1272

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACB84855; ACB84855; Nther_1272
KEGGinth:Nther_1272

Phylogenomic databases

eggNOGiENOG4105CHM Bacteria
COG0436 LUCA
HOGENOMiHOG000223051
KOiK10206
OMAiPYAFINP
OrthoDBiPOG091H09WQ

Enzyme and pathway databases

UniPathwayi
UPA00034;UER00466

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
IPR004838 NHTrfase_class1_PyrdxlP-BS
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
PfamiView protein in Pfam
PF00155 Aminotran_1_2, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
PROSITEiView protein in PROSITE
PS00105 AA_TRANSFER_CLASS_1, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiDAPAT_NATTJ
AccessioniPrimary (citable) accession number: B2A250
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: May 20, 2008
Last modified: October 10, 2018
This is version 60 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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