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	46	SubstrateUniRule annotation	1
Binding siteⁱ	66	SubstrateUniRule annotation	1
Active siteⁱ	75	Proton donorUniRule annotation	1
Binding siteⁱ	159	SubstrateUniRule annotation	1
Siteⁱ	161	Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation	1
Binding siteⁱ	192	SubstrateUniRule annotation	1
Siteⁱ	210	Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation	1
Active siteⁱ	219	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

UniPathwayⁱ	UPA00034; UER00025.

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:azo0594
Organismⁱ	Azoarcus sp. (strain BH72)
Taxonomic identifierⁱ	62928 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Bacteria › Proteobacteria › Betaproteobacteria › Rhodocyclales › Rhodocyclaceae › Azoarcus
Proteomesⁱ	UP000002588 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_1000011833	1 – 277	Diaminopimelate epimeraseAdd BLAST		277

Interactionⁱ

Subunit structureⁱ

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGⁱ	62928.azo0594.

STRINGⁱ

62928.azo0594.

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	A1K306.
SMRⁱ	A1K306.
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Region

Feature key	Position(s)	DescriptionActions	Length
Regionⁱ	76 – 77	Substrate bindingUniRule annotation	2
Regionⁱ	210 – 211	Substrate bindingUniRule annotation	2
Regionⁱ	220 – 221	Substrate bindingUniRule annotation	2

Sequence similaritiesⁱ

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGⁱ	ENOG4105E4Z. Bacteria. COG0253. LUCA.
HOGENOMⁱ	HOG000220467.
KEGG Orthology (KO) More...KOⁱ	K01778.
OMAⁱ	MCGNGGR.
Database of Orthologous Groups More...OrthoDBⁱ	POG091H01QC.

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.

A1K306-1 [UniParc]FASTA Add to basket

« Hide

        10         20         30         40         50
MHIRFTKMHG LGNDFVVIDA TRTPVDLTPA RVKAIADRHF GVGCDQLLVV 
        60         70         80         90        100
EPPGSDEVDF RYRIFNADGG EVEQCGNGAR CFVRFVHDKG LTDKREIRVE 
       110        120        130        140        150
TRAGVIAPAL RPDGLVSVDM GVPELSPARI PFVSDSDAWV QPLQLAEDTV 
       160        170        180        190        200
AITAVSMGNP HAVQVVADVD TAPVARQGAE IECHPRFPAR VNAGFMQVVD 
       210        220        230        240        250
AGHIRLRVFE RGAGETLACG TGACAAVVAG IGRGLLVSPV RVETRGGELE 
       260        270 
IAWAGPGTPV VMTGPAVTVF EGELELP

Length:277

Mass (Da):29,433

Last modified:February 6, 2007 - v1

Checksum:ⁱ2572480EA9E797E6

GO

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AM406670 Genomic DNA. Translation: CAL93211.1.
NCBI Reference Sequences More...RefSeqⁱ	WP_011764329.1. NC_008702.1.

Genome annotation databases

EnsemblBacteriaⁱ	CAL93211; CAL93211; azo0594.
KEGGⁱ	azo:azo0594.

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 one 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.

Cross-referencesⁱ

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AM406670 Genomic DNA. Translation: CAL93211.1.
NCBI Reference Sequences More...RefSeqⁱ	WP_011764329.1. NC_008702.1.

3D structure databases

ProteinModelPortalⁱ	A1K306.
SMRⁱ	A1K306.
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

STRINGⁱ	62928.azo0594.

STRINGⁱ

62928.azo0594.

Protocols and materials databases

Structural Biology Knowledgebase	Search...

Structural Biology Knowledgebase

Search...

Genome annotation databases

EnsemblBacteriaⁱ	CAL93211; CAL93211; azo0594.
KEGGⁱ	azo:azo0594.

Phylogenomic databases

eggNOGⁱ	ENOG4105E4Z. Bacteria. COG0253. LUCA.
HOGENOMⁱ	HOG000220467.
KEGG Orthology (KO) More...KOⁱ	K01778.
OMAⁱ	MCGNGGR.
Database of Orthologous Groups More...OrthoDBⁱ	POG091H01QC.

Enzyme and pathway databases

UniPathwayⁱ	UPA00034; UER00025.

UniPathwayⁱ

UPA00034; UER00025.

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_AZOSB
Accessionⁱ	A1K306Primary (citable) accession number: A1K306
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
	Last sequence update:	February 6, 2007
	Last modified:	June 7, 2017
	This is version 66 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

UniParc

Help

UniRef

Proteomes

Annotation systems

Supporting data

UniProtKB - A1K306 (DAPF_AZOSB)

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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