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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Bacillus anthracis
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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.By similarity

Catalytic activityi

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

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.
Proteins known to be involved in this subpathway in this organism are:
  1. Diaminopimelate epimerase (dapF), 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 keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei14SubstrateBy similarity1
Binding sitei67SubstrateBy similarity1
Active sitei76Proton donor/acceptorBy similarity1
Binding sitei166SubstrateBy similarity1
Sitei168Important for catalytic activitySequence analysis1
Binding sitei199SubstrateBy similarity1
Sitei217Important for catalytic activitySequence analysis1
Active sitei226Proton donor/acceptorBy similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciANTHRA:DAPF-MONOMER.
UniPathwayiUPA00034; UER00025.

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimerase (EC:5.1.1.7)
Short name:
DAP epimerase
Gene namesi
Name:dapF
Ordered Locus Names:BA_5170, GBAA_5170, BAS4806
OrganismiBacillus anthracis
Taxonomic identifieri1392 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillusBacillus cereus group
Proteomesi
  • UP000000594 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000118371 – 288Diaminopimelate epimeraseAdd BLAST288

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi76 ↔ 226By similarity

Keywords - PTMi

Disulfide bond

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

IntActiQ81XR2. 3 interactors.
STRINGi198094.BA_5170.

Structurei

Secondary structure

1288
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi1 – 11Combined sources11
Beta strandi14 – 20Combined sources7
Turni21 – 23Combined sources3
Helixi28 – 30Combined sources3
Helixi31 – 39Combined sources9
Turni41 – 43Combined sources3
Beta strandi48 – 54Combined sources7
Beta strandi57 – 67Combined sources11
Turni76 – 79Combined sources4
Helixi80 – 89Combined sources10
Beta strandi94 – 102Combined sources9
Beta strandi105 – 126Combined sources22
Helixi132 – 134Combined sources3
Beta strandi143 – 152Combined sources10
Beta strandi155 – 172Combined sources18
Helixi176 – 178Combined sources3
Turni181 – 183Combined sources3
Helixi184 – 189Combined sources6
Beta strandi199 – 207Combined sources9
Beta strandi210 – 216Combined sources7
Beta strandi218 – 220Combined sources3
Helixi227 – 239Combined sources13
Beta strandi249 – 252Combined sources4
Beta strandi257 – 262Combined sources6
Beta strandi268 – 273Combined sources6
Beta strandi275 – 286Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2OTNX-ray2.40A/B1-288[»]
ProteinModelPortaliQ81XR2.
SMRiQ81XR2.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ81XR2.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni11 – 12SubstrateBy similarity2
Regioni76 – 78Substrate bindingBy similarity3
Regioni217 – 218Substrate bindingBy similarity2
Regioni227 – 228Substrate bindingBy similarity2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.Curated

Phylogenomic databases

eggNOGiENOG4105E4Z. Bacteria.
COG0253. LUCA.
HOGENOMiHOG000220466.
KOiK01778.
OMAiRFTKMQG.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase. 1 hit.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q81XR2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSQFSFTKMH GLGNSYIYVN MFEEQIPEED LALVAEKVSN INTGIGADGM
60 70 80 90 100
ILICPSDVAP VKMRMFNNDG SEGKSCGNGL RCVAKYAYEH KLVEDTVFTI
110 120 130 140 150
ETLAGIVTAE VTVEEGKVTL AKIDMGAPRL TRAEIPMLGE GETPFIRENF
160 170 180 190 200
LYNNHRYAFT AVSMGNPHAV IFVDDVEQAP LTTLGPVLET HEMFPERVNV
210 220 230 240 250
EFIEILNEEE MNFRVWERGS GVTQACGTGA CAAVVASILN GKMERGKEIT
260 270 280
VHLAGGDLMI AWTEEGNVLM KGPAEVICRG VYEYKIEA
Length:288
Mass (Da):31,613
Last modified:June 1, 2003 - v1
Checksum:iF82364D2AC4202CA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016879 Genomic DNA. Translation: AAP28840.1.
AE017225 Genomic DNA. Translation: AAT57099.1.
AE017334 Genomic DNA. Translation: AAT70160.1.
RefSeqiNP_847354.1. NC_003997.3.
WP_000077386.1. NZ_LHUO01000001.1.
YP_031049.1. NC_005945.1.

Genome annotation databases

EnsemblBacteriaiAAP28840; AAP28840; BA_5170.
AAT57099; AAT57099; BAS4806.
AAT70160; AAT70160; GBAA_5170.
GeneIDi1084119.
2848459.
KEGGiban:BA_5170.
bar:GBAA_5170.
bat:BAS4806.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016879 Genomic DNA. Translation: AAP28840.1.
AE017225 Genomic DNA. Translation: AAT57099.1.
AE017334 Genomic DNA. Translation: AAT70160.1.
RefSeqiNP_847354.1. NC_003997.3.
WP_000077386.1. NZ_LHUO01000001.1.
YP_031049.1. NC_005945.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2OTNX-ray2.40A/B1-288[»]
ProteinModelPortaliQ81XR2.
SMRiQ81XR2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ81XR2. 3 interactors.
STRINGi198094.BA_5170.

Protocols and materials databases

DNASUi1084119.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAP28840; AAP28840; BA_5170.
AAT57099; AAT57099; BAS4806.
AAT70160; AAT70160; GBAA_5170.
GeneIDi1084119.
2848459.
KEGGiban:BA_5170.
bar:GBAA_5170.
bat:BAS4806.

Phylogenomic databases

eggNOGiENOG4105E4Z. Bacteria.
COG0253. LUCA.
HOGENOMiHOG000220466.
KOiK01778.
OMAiRFTKMQG.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciANTHRA:DAPF-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ81XR2.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase. 1 hit.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDAPF_BACAN
AccessioniPrimary (citable) accession number: Q81XR2
Secondary accession number(s): Q6F086, Q6HRI9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: June 1, 2003
Last modified: November 2, 2016
This is version 101 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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.