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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei24 – 241SubstrateUniRule annotation
Binding sitei61 – 611SubstrateUniRule annotation
Binding sitei79 – 791SubstrateUniRule annotation
Active sitei88 – 881Proton donor/acceptorUniRule annotation
Binding sitei176 – 1761SubstrateUniRule annotation
Sitei178 – 1781Important for catalytic activityUniRule annotation
Binding sitei210 – 2101SubstrateUniRule annotation
Sitei228 – 2281Important for catalytic activityUniRule annotation
Active sitei237 – 2371Proton donor/acceptorUniRule annotation

GO - Molecular functioni

  1. diaminopimelate epimerase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. lysine biosynthetic process via diaminopimelate Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciCACE272562:GJIH-2679-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:CA_C2624
OrganismiClostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
Taxonomic identifieri272562 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesClostridiaceaeClostridium
ProteomesiUP000000814: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 333333Diaminopimelate epimerasePRO_0000149834Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi88 ↔ 237

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi272562.CA_C2624.

Structurei

3D structure databases

ProteinModelPortaliQ97FV2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni88 – 903Substrate bindingUniRule annotation
Regioni228 – 2292Substrate bindingUniRule annotation
Regioni238 – 2392Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiHEGFGAD.
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.

Q97FV2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEINIREDAF IVEINILKCH GTGNDFILID EYNNNYNLDD ETRRDIAIQA
60 70 80 90 100
CNRAKFIGGD GILFVQKSDI CDAKMRIFNA DGSEAEMCGN GLRCVGRYVI
110 120 130 140 150
EMLNKESVEI ETLKSKYWVK LQEDIYEGVK TVKIDIKSVS LDVKTLPLNY
160 170 180 190 200
KKEKLIFDKI PELSDEFDFT AVSITNPHLI AIVNNIDSDK LVEIGKKGNS
210 220 230 240 250
TKSVLPQGVN VSFVKVIDSS NIYVKTYERG VGLTKSCGTA MTASSIVSCI
260 270 280 290 300
GEKVQFDNAI NVYNDGGAIK TIVHKDSNGN YSVDFIGNAT FIFEGTMELD
310 320 330
KRKIEQFTID ESKFEKETNS YNEFFEYTRK NCK
Length:333
Mass (Da):37,528
Last modified:October 1, 2001 - v1
Checksum:i37CF1548F4B54A05
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001437 Genomic DNA. Translation: AAK80571.1.
PIRiH97222.
RefSeqiNP_349231.1. NC_003030.1.

Genome annotation databases

EnsemblBacteriaiAAK80571; AAK80571; CA_C2624.
GeneIDi1118807.
KEGGicac:CA_C2624.
PATRICi32039613. VBICloAce74127_2813.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001437 Genomic DNA. Translation: AAK80571.1.
PIRiH97222.
RefSeqiNP_349231.1. NC_003030.1.

3D structure databases

ProteinModelPortaliQ97FV2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272562.CA_C2624.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAK80571; AAK80571; CA_C2624.
GeneIDi1118807.
KEGGicac:CA_C2624.
PATRICi32039613. VBICloAce74127_2813.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiHEGFGAD.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciCACE272562:GJIH-2679-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 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787.

Entry informationi

Entry nameiDAPF_CLOAB
AccessioniPrimary (citable) accession number: Q97FV2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: October 1, 2001
Last modified: January 7, 2015
This is version 78 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.