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Protein

LL-diaminopimelate aminotransferase

Gene

dapL

Organism
Geobacter metallireducens (strain GS-15 / ATCC 53774 / DSM 7210)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-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, a reaction that requires three enzymes in E.coli.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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei42 – 421Substrate; via amide nitrogenUniRule annotation
Binding sitei72 – 721Pyridoxal phosphate; shared with dimeric partnerUniRule annotation
Binding sitei75 – 751Substrate; shared with dimeric partnerUniRule annotation
Binding sitei109 – 1091SubstrateUniRule annotation
Binding sitei132 – 1321SubstrateUniRule annotation
Binding sitei187 – 1871Pyridoxal phosphateUniRule annotation
Binding sitei187 – 1871SubstrateUniRule annotation
Binding sitei215 – 2151Pyridoxal phosphateUniRule annotation
Binding sitei218 – 2181Pyridoxal phosphateUniRule annotation
Binding sitei246 – 2461Pyridoxal phosphateUniRule annotation
Binding sitei248 – 2481Pyridoxal phosphateUniRule annotation
Binding sitei257 – 2571Pyridoxal phosphateUniRule annotation
Binding sitei292 – 2921Substrate; shared with dimeric partnerUniRule annotation
Binding sitei388 – 3881SubstrateUniRule annotation

GO - Molecular functioni

  1. L,L-diaminopimelate aminotransferase activity Source: UniProtKB-HAMAP
  2. pyridoxal phosphate binding Source: InterPro

GO - Biological processi

  1. lysine biosynthetic process via diaminopimelate, diaminopimelate-aminotransferase pathway Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Aminotransferase, Transferase

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciGMET269799:GHNY-214-MONOMER.
UniPathwayiUPA00034; 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:Gmet_0213
OrganismiGeobacter metallireducens (strain GS-15 / ATCC 53774 / DSM 7210)
Taxonomic identifieri269799 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfuromonadalesGeobacteraceaeGeobacter
ProteomesiUP000007073: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 410410LL-diaminopimelate aminotransferasePRO_0000342238Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei249 – 2491N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi269799.Gmet_0213.

Structurei

3D structure databases

ProteinModelPortaliQ39Z65.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the class-I pyridoxal-phosphate-dependent aminotransferase family. LL-diaminopimelate aminotransferase subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0436.
HOGENOMiHOG000223061.
KOiK10206.
OMAiTGTRCAF.
OrthoDBiEOG6XWV2X.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_01642. DapL_aminotrans_1.
InterProiIPR004839. Aminotransferase_I/II.
IPR019942. DapL_aminotrans.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
[Graphical view]
PANTHERiPTHR11751:SF22. PTHR11751:SF22. 1 hit.
PfamiPF00155. Aminotran_1_2. 1 hit.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 1 hit.
TIGRFAMsiTIGR03542. DAPAT_plant. 1 hit.

Sequencei

Sequence statusi: Complete.

Q39Z65-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKINDNYLK LKAGYLFPEI GRRVREFSAA NPEAKVIRLG IGDVTRPLAP
60 70 80 90 100
AIIKAFHDAV DDLATIDNFA GYGPEQGYDW LINAIIEKSY KPLGVSLKTE
110 120 130 140 150
EMFISDGSKC DCANILDIFA LDNVVAIGDP VYPVYNDTNV MIGRTGDADE
160 170 180 190 200
KGYYKGIVYM PCTEANGFIP SLPTEKVDII YLCFPNNPTG TVATKAELKK
210 220 230 240 250
WVDYANANDA VIFFDAAYEA FITDPAIPHS IYEIEGAKKC AIEFRSFSKT
260 270 280 290 300
AGFTGVRCGL VVVPEEVMGT TPTGEKYSFN KLWLRRTTTK FNGASYPVQK
310 320 330 340 350
AAAAVYSDEG WKQNKEIIDY YMENARIIRE GLAAAGLTVY GGVNAPYIWL
360 370 380 390 400
KTPGGMSSWD FFDKLLTECN VVGTPGSGFG PSGEGFFRLS AFGHRENVIE
410
AVERIKKNLK
Length:410
Mass (Da):45,135
Last modified:November 22, 2005 - v1
Checksum:i15A33F2EE96CDC11
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000148 Genomic DNA. Translation: ABB30459.1.
RefSeqiWP_004512802.1. NC_007517.1.
YP_006719173.1. NC_007517.1.

Genome annotation databases

EnsemblBacteriaiABB30459; ABB30459; Gmet_0213.
GeneIDi3739675.
KEGGigme:Gmet_0213.
PATRICi21999568. VBIGeoMet55070_0231.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000148 Genomic DNA. Translation: ABB30459.1.
RefSeqiWP_004512802.1. NC_007517.1.
YP_006719173.1. NC_007517.1.

3D structure databases

ProteinModelPortaliQ39Z65.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi269799.Gmet_0213.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABB30459; ABB30459; Gmet_0213.
GeneIDi3739675.
KEGGigme:Gmet_0213.
PATRICi21999568. VBIGeoMet55070_0231.

Phylogenomic databases

eggNOGiCOG0436.
HOGENOMiHOG000223061.
KOiK10206.
OMAiTGTRCAF.
OrthoDBiEOG6XWV2X.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00466.
BioCyciGMET269799:GHNY-214-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_01642. DapL_aminotrans_1.
InterProiIPR004839. Aminotransferase_I/II.
IPR019942. DapL_aminotrans.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
[Graphical view]
PANTHERiPTHR11751:SF22. PTHR11751:SF22. 1 hit.
PfamiPF00155. Aminotran_1_2. 1 hit.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 1 hit.
TIGRFAMsiTIGR03542. DAPAT_plant. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Geobacter metallireducens GS-15."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Di Bartolo G., Chain P., Schmutz J., Larimer F., Land M., Kyrpides N., Ivanova N., Richardson P.
    Submitted (OCT-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: GS-15 / ATCC 53774 / DSM 7210.

Entry informationi

Entry nameiDAPAT_GEOMG
AccessioniPrimary (citable) accession number: Q39Z65
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: November 22, 2005
Last modified: March 4, 2015
This is version 69 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

Complete proteome, Reference proteome

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.