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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Acidothermus cellulolyticus (strain ATCC 43068 / 11B)
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.UniRule annotation

Catalytic activityi

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

Pathway: 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:
  1. 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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei14 – 141SubstrateUniRule annotation
Binding sitei47 – 471SubstrateUniRule annotation
Binding sitei97 – 971SubstrateUniRule annotation
Active sitei106 – 1061Proton donor/acceptorUniRule annotation
Binding sitei178 – 1781SubstrateUniRule annotation
Sitei180 – 1801Important for catalytic activityUniRule annotation
Binding sitei209 – 2091SubstrateUniRule annotation
Sitei227 – 2271Important for catalytic activityUniRule annotation
Active sitei236 – 2361Proton donor/acceptorUniRule annotation

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

BioCyciACEL351607:GIXW-1517-MONOMER.
UniPathwayiUPA00034; UER00025.

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimeraseUniRule annotation (EC:5.1.1.7UniRule annotation)
Short name:
DAP epimeraseUniRule annotation
Gene namesi
Name:dapFUniRule annotation
Ordered Locus Names:Acel_1483
OrganismiAcidothermus cellulolyticus (strain ATCC 43068 / 11B)
Taxonomic identifieri351607 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaAcidothermalesAcidothermaceaeAcidothermus
ProteomesiUP000008221 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 303303Diaminopimelate epimerasePRO_1000077688Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi106 ↔ 236

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi351607.Acel_1483.

Structurei

3D structure databases

ProteinModelPortaliA0LUZ5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni106 – 1083Substrate bindingUniRule annotation
Regioni227 – 2282Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220467.
KOiK01778.
OMAiAIRHWAG.
OrthoDBiEOG6ND0M5.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A0LUZ5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDDVPFLKGH ATRNDFVILP DHDDELELDA ALVRAICDRR RGLGADGILR
60 70 80 90 100
VVAVPADDAP VSSAGATADA AAGRPPQPSA GRPPQPAAAR WFMDYRNADG
110 120 130 140 150
SVAEICGNGI RLFARYLVDA GLEEAGRFLV GTRIGPVPVD VPPAGDVTAW
160 170 180 190 200
LPAPELRGGG RARFDGRMLE GVRVSVGNPH LVCVVDTLAD VDFTRAPVLD
210 220 230 240 250
SDEFPDGANV EVVEIERPGV LRMRVYERGV GETWSCGSGA CAVAAVAEGA
260 270 280 290 300
ERIPRPADGW WRIVVPGGEL RIRFDGDRVA LAGPAVVVAE GRLHLAALEK

SDG
Length:303
Mass (Da):32,002
Last modified:December 12, 2006 - v1
Checksum:i3DBBBFB454EFDFE0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000481 Genomic DNA. Translation: ABK53255.1.
RefSeqiWP_011720318.1. NC_008578.1.
YP_873241.1. NC_008578.1.

Genome annotation databases

EnsemblBacteriaiABK53255; ABK53255; Acel_1483.
KEGGiace:Acel_1483.
PATRICi20673496. VBIAciCel132453_1576.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000481 Genomic DNA. Translation: ABK53255.1.
RefSeqiWP_011720318.1. NC_008578.1.
YP_873241.1. NC_008578.1.

3D structure databases

ProteinModelPortaliA0LUZ5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi351607.Acel_1483.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK53255; ABK53255; Acel_1483.
KEGGiace:Acel_1483.
PATRICi20673496. VBIAciCel132453_1576.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220467.
KOiK01778.
OMAiAIRHWAG.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciACEL351607:GIXW-1517-MONOMER.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43068 / 11B.

Entry informationi

Entry nameiDAPF_ACIC1
AccessioniPrimary (citable) accession number: A0LUZ5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: December 12, 2006
Last modified: June 24, 2015
This is version 60 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

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.