A1K306 (DAPF_AZOSB) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Diaminopimelate epimerase
Short name=DAP epimerase
EC=5.1.1.7

Gene names

Name:	dapF
Ordered Locus Names:	azo0594

Organism

Azoarcus sp. (strain BH72) [Complete proteome] [HAMAP]

Taxonomic identifier

62928 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Betaproteobacteria › Rhodocyclales › Rhodocyclaceae › Azoarcus

Protein attributes

Sequence length	277 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Catalyzes the stereoinversion of LL-2,6-diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso-DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan By similarity. HAMAP-Rule MF_00197
Catalytic activity	LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate. HAMAP-Rule MF_00197
Pathway	Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; DL-2,6-diaminopimelate from LL-2,6-diaminopimelate: step 1/1. HAMAP-Rule MF_00197
Subcellular location	Cytoplasm By similarity HAMAP-Rule MF_00197.
Sequence similarities	Belongs to the diaminopimelate epimerase family.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Lysine biosynthesis
Cellular component	Cytoplasm
Molecular function	Isomerase
PTM	Disulfide bond
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	lysine biosynthetic process via diaminopimelate Inferred from electronic annotation. Source: UniProtKB-HAMAP
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	diaminopimelate epimerase activity Inferred from electronic annotation. Source: UniProtKB-HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 277	277	Diaminopimelate epimerase HAMAP-Rule MF_00197		PRO_1000011833
Regions
	Region	10 – 11	2	Substrate binding By similarity
	Region	75 – 77	3	Substrate binding By similarity
	Region	210 – 211	2	Substrate binding By similarity
	Region	220 – 221	2	Substrate binding By similarity
Sites
	Active site	75	1	Proton donor/acceptor By similarity
	Active site	219	1	Proton donor/acceptor By similarity
	Binding site	13	1	Substrate By similarity
	Binding site	46	1	Substrate By similarity
	Binding site	66	1	Substrate By similarity
	Binding site	159	1	Substrate By similarity
	Binding site	192	1	Substrate By similarity
	Site	161	1	Important for catalytic activity By similarity
	Site	210	1	Important for catalytic activity By similarity
Amino acid modifications
	Disulfide bond	75 ↔ 219		HAMAP-Rule MF_00197

Sequences

	Sequence		Length	Mass (Da)
	A1K306 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: 2572480EA9E797E6	FASTA	277	29,433
	10 20 30 40 50 60 MHIRFTKMHG LGNDFVVIDA TRTPVDLTPA RVKAIADRHF GVGCDQLLVV EPPGSDEVDF 70 80 90 100 110 120 RYRIFNADGG EVEQCGNGAR CFVRFVHDKG LTDKREIRVE TRAGVIAPAL RPDGLVSVDM 130 140 150 160 170 180 GVPELSPARI PFVSDSDAWV QPLQLAEDTV AITAVSMGNP HAVQVVADVD TAPVARQGAE 190 200 210 220 230 240 IECHPRFPAR VNAGFMQVVD AGHIRLRVFE RGAGETLACG TGACAAVVAG IGRGLLVSPV 250 260 270 RVETRGGELE IAWAGPGTPV VMTGPAVTVF EGELELP

References

[1]

"Complete genome of the mutualistic, N2-fixing grass endophyte Azoarcus sp. strain BH72." Krause A., Ramakumar A., Bartels D., Battistoni F., Bekel T., Boch J., Boehm M., Friedrich F., Hurek T., Krause L., Linke B., McHardy A.C., Sarkar A., Schneiker S., Syed A.A., Thauer R., Vorhoelter F.-J., Weidner S. , Puehler A., Reinhold-Hurek B., Kaiser O., Goesmann A. Nat. Biotechnol. 24:1385-1391(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: BH72.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AM406670 Genomic DNA. Translation: CAL93211.1.
RefSeq	YP_932098.1. NC_008702.1.
3D structure databases
ProteinModelPortal	A1K306.
SMR	A1K306. Positions 3-276.
ModBase	Search...
MobiDB	Search...
Protein-protein interaction databases
STRING	62928.azo0594.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAL93211; CAL93211; azo0594.
GeneID	4606464.
KEGG	azo:azo0594.
PATRIC	21009450. VBIAzoSp26047_0600.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0253.
HOGENOM	HOG000220467.
KO	K01778.
OMA	KDITVMV.
OrthoDB	EOG6ND0M5.
Enzyme and pathway databases
UniPathway	UPA00034; UER00025.
Family and domain databases
HAMAP	MF_00197. DAP_epimerase.
InterPro	IPR018510. DAP_epimerase_AS. IPR001653. DAP_epimerase_DapF. [Graphical view]
PANTHER	PTHR31689. PTHR31689. 1 hit.
Pfam	PF01678. DAP_epimerase. 2 hits. [Graphical view]
TIGRFAMs	TIGR00652. DapF. 1 hit.
PROSITE	PS01326. DAP_EPIMERASE. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DAPF_AZOSB

Accession

Primary (citable) accession number: A1K306

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	February 6, 2007
Last modified:	June 11, 2014
This is version 52 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program