dapF

Functionⁱ

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.UniRule annotation

Catalytic activityⁱ

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.UniRule annotation

Pathwayⁱ: L-lysine biosynthesis via DAP pathway

This protein is involved in step 1 of the subpathway that synthesizes DL-2,6-diaminopimelate from LL-2,6-diaminopimelate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:

Diaminopimelate epimerase (dapF)

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 DL-2,6-diaminopimelate from LL-2,6-diaminopimelate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature key	Position(s)	DescriptionActions	Length
Binding siteⁱ	13	SubstrateUniRule annotation	1
Binding siteⁱ	73	SubstrateUniRule annotation	1
Active siteⁱ	82	Proton donorUniRule annotation	1
Binding siteⁱ	172	SubstrateUniRule annotation	1
Siteⁱ	174	Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation	1
Binding siteⁱ	209	SubstrateUniRule annotation	1
Siteⁱ	227	Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation	1
Active siteⁱ	236	Proton acceptorUniRule annotation	1

GO - Molecular functionⁱ

diaminopimelate epimerase activity Source: UniProtKB-EC

Complete GO annotation...

GO - Biological processⁱ

lysine biosynthetic process via diaminopimelate Source: UniProtKB-UniPathway

Complete GO annotation...

Keywordsⁱ

Molecular function	Isomerase
Biological process	Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCycⁱ	LPLA220668:G137Z-1858-MONOMER.
UniPathwayⁱ	UPA00034; UER00025.

Names & Taxonomyⁱ

Protein namesⁱ	Recommended name: Diaminopimelate epimeraseUniRule annotation (EC:5.1.1.7UniRule annotation) Short name: DAP epimeraseUniRule annotation Alternative name(s): PLP-independent amino acid racemaseUniRule annotation
Gene namesⁱ	Name:dapFUniRule annotation Ordered Locus Names:lp_2185
Organismⁱ	Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
Taxonomic identifierⁱ	220668 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Bacteria › Terrabacteria group › Firmicutes › Bacilli › Lactobacillales › Lactobacillaceae › Lactobacillus › Lactobacillus plantarum
Proteomesⁱ	UP000000432 Componentⁱ: Chromosome

Subcellular locationⁱ

Cytoplasm
UniRule annotation
Manual assertion according to rulesⁱ
- HAMAP-Rule:MF_00197

GO - Cellular componentⁱ

cytoplasm Source: UniProtKB-SubCell

Complete GO annotation...

Keywords - Cellular componentⁱ

Cytoplasm

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000149845	1 – 332	Diaminopimelate epimeraseAdd BLAST		332

Interactionⁱ

Subunit structureⁱ

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGⁱ	220668.lp_2185.

STRINGⁱ

220668.lp_2185.

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	Q88V90.
SMRⁱ	Q88V90.
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Region

Feature key	Position(s)	DescriptionActions	Length
Regionⁱ	83 – 84	Substrate bindingUniRule annotation	2
Regionⁱ	227 – 228	Substrate bindingUniRule annotation	2
Regionⁱ	237 – 238	Substrate bindingUniRule annotation	2

Sequence similaritiesⁱ

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGⁱ	ENOG4105E4Z. Bacteria. COG0253. LUCA.
HOGENOMⁱ	HOG000220466.
KEGG Orthology (KO) More...KOⁱ	K01778.
OMAⁱ	MCGNGGR.

Family and domain databases

HAMAPⁱ	MF_00197. DAP_epimerase. 1 hit.
InterProⁱ	View protein in InterPro IPR018510. DAP_epimerase_AS. IPR001653. DAP_epimerase_DapF.
PANTHERⁱ	PTHR31689. PTHR31689. 1 hit.
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF01678. DAP_epimerase. 2 hits.
TIGRFAMsⁱ	TIGR00652. DapF. 1 hit.
PROSITEⁱ	View protein in PROSITE PS01326. DAP_EPIMERASE. 1 hit.

Sequenceⁱ

Sequence statusⁱ: Complete.

Q88V90-1 [UniParc]FASTA Add to basket

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        10         20         30         40         50
MAVKMIKVHG SGNDFYLLDQ TQFQAPLSDA DLKQLAINIC KRDGAGLYDG 
        60         70         80         90        100
ADGVLVVDKS EHPQVLGRMR VINADGTEAS MCGNGLRTVA RYLGTQNSQE 
       110        120        130        140        150
DFRVQTMYAD LKVQAVADFA AHVPAYSVEI SPVTFDAQTL GMHANNDATT 
       160        170        180        190        200
IINEKIPALS ADLKFSAVAV PNPHLIAFVD HDTLVGPELG RIGEWMNDGK 
       210        220        230        240        250
NQIFPDGVNV SFVEVLGPNS IFVRTFERGV GFTNACGTAM SASSLMYVLL 
       260        270        280        290        300
HQESTDFNQE IHVTNPGGMV KTVVHQGADE EYWMELIGNA TFVRIVTLPL 
       310        320        330 
EDALQGDYSP VTATETGEQV AYEDFVANLA KA

Length:332

Mass (Da):35,962

Last modified:June 20, 2003 - v1

Checksum:ⁱ1D5FF6C6E05441E0

GO

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AL935263 Genomic DNA. Translation: CCC79406.1.
NCBI Reference Sequences More...RefSeqⁱ	WP_003644607.1. NC_004567.2. YP_004889920.1. NC_004567.2.

Genome annotation databases

EnsemblBacteriaⁱ	CCC79406; CCC79406; lp_2185.
GeneIDⁱ	1063577.
KEGGⁱ	lpl:lp_2185.
PATRICⁱ	fig\|220668.9.peg.1847.

Similar proteinsⁱ

Entry	Cluster members	Organisms	Length	Cluster ID	Cluster name	Size
Q88V90	A0A1W6NUQ9	Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1) Lactobacillus plantarum	332	UniRef100_Q88V90	Cluster: Diaminopimelate epimerase	2

Entry	Cluster members	Organisms	Length	Cluster ID	Cluster name	Size
Q88V90	A0A1W6NUQ9 A0A0R1FYF9 G0M0Z8 F6IXD3 A0A0R1QZD7 U2XMF0 R9X449 UPI00097875D9 A0A199QEG3 A0A1A0DNQ6 +14	Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1) Lactobacillus plantarum Lactobacillus pentosus DSM 20314 Lactobacillus pentosus IG1 Lactobacillus pentosus MP-10 Lactobacillus paraplantarum DSM 10667 Lactobacillus plantarum AY01 Lactobacillus plantarum 16 Lactobacillus paraplantarum Lactobacillus pentosus And more	332	UniRef90_Q88V90	Cluster: Diaminopimelate epimerase	25

Entry	Cluster members	Organisms	Length	Cluster ID	Cluster name	Size
Q88V90	A0A1W6NUQ9 A0A0R1FYF9 G0M0Z8 F6IXD3 A0A0R1QZD7 U2XMF0 A0A1A0DNQ6 UPI0006C3083D R9X449 UPI0004DD18E2 +470	Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1) Lactobacillus plantarum Lactobacillus pentosus DSM 20314 Lactobacillus pentosus IG1 Lactobacillus pentosus MP-10 Lactobacillus paraplantarum DSM 10667 Lactobacillus plantarum AY01 Lactobacillus plantarum 16 Lactobacillus paraplantarum Lactobacillus pentosus KCA1 And more	332	UniRef50_Q88V90	Cluster: Diaminopimelate epimerase	481

Cross-referencesⁱ

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AL935263 Genomic DNA. Translation: CCC79406.1.
NCBI Reference Sequences More...RefSeqⁱ	WP_003644607.1. NC_004567.2. YP_004889920.1. NC_004567.2.

3D structure databases

ProteinModelPortalⁱ	Q88V90.
SMRⁱ	Q88V90.
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

STRINGⁱ	220668.lp_2185.

STRINGⁱ

220668.lp_2185.

Protocols and materials databases

Structural Biology Knowledgebase	Search...

Structural Biology Knowledgebase

Search...

Genome annotation databases

EnsemblBacteriaⁱ	CCC79406; CCC79406; lp_2185.
GeneIDⁱ	1063577.
KEGGⁱ	lpl:lp_2185.
PATRICⁱ	fig\|220668.9.peg.1847.

Phylogenomic databases

eggNOGⁱ	ENOG4105E4Z. Bacteria. COG0253. LUCA.
HOGENOMⁱ	HOG000220466.
KEGG Orthology (KO) More...KOⁱ	K01778.
OMAⁱ	MCGNGGR.

Enzyme and pathway databases

UniPathwayⁱ	UPA00034; UER00025.
BioCycⁱ	LPLA220668:G137Z-1858-MONOMER.

Family and domain databases

HAMAPⁱ	MF_00197. DAP_epimerase. 1 hit.
InterProⁱ	View protein in InterPro IPR018510. DAP_epimerase_AS. IPR001653. DAP_epimerase_DapF.
PANTHERⁱ	PTHR31689. PTHR31689. 1 hit.
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF01678. DAP_epimerase. 2 hits.
TIGRFAMsⁱ	TIGR00652. DapF. 1 hit.
PROSITEⁱ	View protein in PROSITE PS01326. DAP_EPIMERASE. 1 hit.
ProtoNetⁱ	Search...

Entry informationⁱ

Entry nameⁱ	DAPF_LACPL
Accessionⁱ	Q88V90Primary (citable) accession number: Q88V90 Secondary accession number(s): F9UQB7
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	June 20, 2003
	Last sequence update:	June 20, 2003
	Last modified:	August 30, 2017
	This is version 77 of the entry and version 1 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Prokaryotic Protein Annotation Program

UniProtKB

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Annotation systems

Supporting data

UniProtKB - Q88V90 (DAPF_LACPL)

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Diaminopimelate epimerase

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">‘Function’</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: L-lysine biosynthesis via DAP pathway

Sites

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Biological processi

Enzyme and pathway databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Cellular componenti

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

Family and domain databases

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including length and molecular weight.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

Sequence databases

Genome annotation databases

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Documents

Functionⁱ

Pathwayⁱ: L-lysine biosynthesis via DAP pathway

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

GO - Cellular componentⁱ

PTM / Processingⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Sequenceⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ