A4YLC4 (DAPD_BRASO) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase
EC=2.3.1.117

Alternative name(s):
Tetrahydrodipicolinate N-succinyltransferase
Short name=THDP succinyltransferase
Short name=THP succinyltransferase
Short name=Tetrahydropicolinate succinylase

Gene names

Name:	dapD
Ordered Locus Names:	BRADO0775

Organism

Bradyrhizobium sp. (strain ORS278) [Complete proteome] [HAMAP]

Taxonomic identifier

114615 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Bradyrhizobium

Protein attributes

Sequence length	281 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Catalytic activity	Succinyl-CoA + (S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + H2O = CoA + N-succinyl-L-2-amino-6-oxoheptanedioate. HAMAP-Rule MF_00811
Pathway	Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route): step 1/3. HAMAP-Rule MF_00811
Subunit structure	Homotrimer By similarity.
Subcellular location	Cytoplasm By similarity.
Sequence similarities	Belongs to the transferase hexapeptide repeat family.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Diaminopimelate biosynthesis Lysine biosynthesis
Cellular component	Cytoplasm
Domain	Repeat
Molecular function	Acyltransferase Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	diaminopimelate biosynthetic process Inferred from electronic annotation. Source: HAMAP lysine biosynthetic process via diaminopimelate Inferred from electronic annotation. Source: HAMAP
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 281	281	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase HAMAP-Rule MF_00811		PRO_1000047121
Sites
	Binding site	108	1	Substrate By similarity
	Binding site	145	1	Substrate By similarity

Sequences

	Sequence		Length	Mass (Da)
	A4YLC4 [UniParc]. Last modified May 29, 2007. Version 1. Checksum: 64D71A5F09690E35	FASTA	281	29,921
	10 20 30 40 50 60 MSLSALESTI NSAFDARDGV STSTKGEVRD AVESALELLD KGEARVAERA ADGKWSVNQW 70 80 90 100 110 120 LKKAVLLSFR LNDMSVIPGG PGQASWWDKV PSKFEGWGEN RFREAGFRAV PGAIVRRSAF 130 140 150 160 170 180 IARNVVLMPS FVNLGAYVDE STMVDTWSTV GSCAQIGKRV HISGGVGIGG VLEPLQAGPV 190 200 210 220 230 240 IIEDDCFIGA RSEVAEGVIV RKGAVLAMGV FLGASTKIVD RETGETFVGE VPEYAVVVPG 250 260 270 280 ALPGKPMKNG QIGPSTACAV IVKRVDERTR SKTSINELLR D

References

[1]

"Legumes symbioses: absence of nod genes in photosynthetic bradyrhizobia." Giraud E., Moulin L., Vallenet D., Barbe V., Cytryn E., Avarre J.-C., Jaubert M., Simon D., Cartieaux F., Prin Y., Bena G., Hannibal L., Fardoux J., Kojadinovic M., Vuillet L., Lajus A., Cruveiller S., Rouy Z. , Mangenot S., Segurens B., Dossat C., Franck W.L., Chang W.-S., Saunders E., Bruce D., Richardson P., Normand P., Dreyfus B., Pignol D., Stacey G., Emerich D., Vermeglio A., Medigue C., Sadowsky M. Science 316:1307-1312(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ORS278.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CU234118 Genomic DNA. Translation: CAL74700.1.
RefSeq	YP_001202938.1. NC_009445.1.
3D structure databases
ProteinModelPortal	A4YLC4.
SMR	A4YLC4. Positions 3-280.
ModBase	Search...
Protein-protein interaction databases
STRING	114615.BRADO0775.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAL74700; CAL74700; BRADO0775.
GeneID	5119942.
KEGG	bra:BRADO0775.
PATRIC	21217813. VBIBraSp122330_0736.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG2171.
HOGENOM	HOG000003295.
KO	K00674.
OMA	WEANAWV.
ProtClustDB	PRK11830.
Enzyme and pathway databases
BioCyc	BSP114615:GJN5-736-MONOMER.
UniPathway	UPA00034; UER00019.
Family and domain databases
Gene3D	1.10.166.10. 1 hit.
HAMAP	MF_00811. DapD.
InterPro	IPR005664. DapD_Trfase_Hexpep_rpt_fam. IPR001451. Hexapep_transf. IPR023180. THP_succinylTrfase_dom1. IPR011004. Trimer_LpxA-like. [Graphical view]
PANTHER	PTHR19136:SF52. PTHR19136:SF52. 1 hit.
Pfam	PF00132. Hexapep. 2 hits. [Graphical view]
SUPFAM	SSF51161. Trimer_LpxA_like. 1 hit.
TIGRFAMs	TIGR00965. dapD. 1 hit.
PROSITE	PS00101. HEXAPEP_TRANSFERASES. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DAPD_BRASO

Accession

Primary (citable) accession number: A4YLC4

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	May 29, 2007
Last modified:	May 1, 2013
This is version 46 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program