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B8IZX7

- DAPF_DESDA

UniProt

B8IZX7 - DAPF_DESDA

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Status
Reviewed - 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 sitei15 – 151SubstrateUniRule annotation
Binding sitei48 – 481SubstrateUniRule annotation
Binding sitei66 – 661SubstrateUniRule annotation
Active sitei75 – 751Proton donor/acceptorUniRule annotation
Binding sitei170 – 1701SubstrateUniRule annotation
Sitei172 – 1721Important for catalytic activityUniRule annotation
Binding sitei203 – 2031SubstrateUniRule annotation
Sitei221 – 2211Important for catalytic activityUniRule annotation
Active sitei230 – 2301Proton 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

BioCyciDDES525146:GIWF-1181-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:Ddes_1150
OrganismiDesulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Taxonomic identifieri525146 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
ProteomesiUP000002598: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 287287Diaminopimelate epimerasePRO_1000124410Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 230

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi525146.Ddes_1150.

Structurei

3D structure databases

ProteinModelPortaliB8IZX7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni12 – 132Substrate bindingUniRule annotation
Regioni75 – 773Substrate bindingUniRule annotation
Regioni221 – 2222Substrate bindingUniRule annotation
Regioni231 – 2322Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
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.

B8IZX7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAVALRFTKM QGIGNDYVYI NGFQERIDSP GELARKISDR HFGIGSDGLV
60 70 80 90 100
LILPSATADV RMRMFNADGS ESEMCGNAVR CVGKYVYDHG IQVKDVITVE
110 120 130 140 150
TRAGVKIVRL LFEAGKVCGA TVDMGEPELH PARIPVLTET SGDGSQQRFV
160 170 180 190 200
ARPVDVNGQL YEITAVSMGN PHAVIFMKGI DDLDLPRIGP RFEHHPLFPK
210 220 230 240 250
RTNTEFAEVI SSTKVRMRVW ERGAGETLAC GTGACAVAVA CVLNGYAGRD
260 270 280
VEVELKGGSL HIHWDEASNH VYMTGGAVTV FSGEYYI
Length:287
Mass (Da):31,239
Last modified:March 3, 2009 - v1
Checksum:i5540E21839668EF0
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001358 Genomic DNA. Translation: ACL49054.1.
RefSeqiWP_012624779.1. NC_011883.1.
YP_002479732.1. NC_011883.1.

Genome annotation databases

EnsemblBacteriaiACL49054; ACL49054; Ddes_1150.
GeneIDi7284832.
KEGGidds:Ddes_1150.
PATRICi21735974. VBIDesDes50650_1348.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001358 Genomic DNA. Translation: ACL49054.1 .
RefSeqi WP_012624779.1. NC_011883.1.
YP_002479732.1. NC_011883.1.

3D structure databases

ProteinModelPortali B8IZX7.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 525146.Ddes_1150.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL49054 ; ACL49054 ; Ddes_1150 .
GeneIDi 7284832.
KEGGi dds:Ddes_1150.
PATRICi 21735974. VBIDesDes50650_1348.

Phylogenomic databases

eggNOGi COG0253.
HOGENOMi HOG000220466.
KOi K01778.
OrthoDBi EOG6ND0M5.

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci DDES525146:GIWF-1181-MONOMER.

Family and domain databases

HAMAPi MF_00197. DAP_epimerase.
InterProi IPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view ]
PANTHERi PTHR31689. PTHR31689. 1 hit.
Pfami PF01678. DAP_epimerase. 2 hits.
[Graphical view ]
TIGRFAMsi TIGR00652. DapF. 1 hit.
PROSITEi PS01326. DAP_EPIMERASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete sequence of Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Lu M., Kiss H., Meineke L., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L.
    , Kyrpides N., Ovchinnikova G., Hazen T.C.
    Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 27774 / DSM 6949.

Entry informationi

Entry nameiDAPF_DESDA
AccessioniPrimary (citable) accession number: B8IZX7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: October 29, 2014
This is version 34 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