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A5VAG4

- DAPF_SPHWW

UniProt

A5VAG4 - DAPF_SPHWW

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Protein
Diaminopimelate epimerase
Gene
dapF, Swit_2928
Organism
Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273)
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 By similarity.UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei13 – 131Substrate By similarity
Binding sitei47 – 471Substrate By similarity
Binding sitei65 – 651Substrate By similarity
Active sitei74 – 741Proton donor/acceptor By similarity
Binding sitei149 – 1491Substrate By similarity
Sitei151 – 1511Important for catalytic activity By similarity
Binding sitei182 – 1821Substrate By similarity
Sitei200 – 2001Important for catalytic activity By similarity
Active sitei209 – 2091Proton donor/acceptor By similarity

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

BioCyciSWIT392499:GHZK-2962-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:Swit_2928
OrganismiSphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273)
Taxonomic identifieri392499 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSphingomonadalesSphingomonadaceaeSphingomonas
ProteomesiUP000001989: Chromosome

Subcellular locationi

Cytoplasm By similarity 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 – 274274Diaminopimelate epimeraseUniRule annotation
PRO_1000011973Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi74 ↔ 209UniRule annotation

Keywords - PTMi

Disulfide bond

Proteomic databases

PRIDEiA5VAG4.

Interactioni

Protein-protein interaction databases

STRINGi392499.Swit_2928.

Structurei

3D structure databases

ProteinModelPortaliA5VAG4.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate binding By similarity
Regioni74 – 763Substrate binding By similarity
Regioni200 – 2012Substrate binding By similarity
Regioni210 – 2112Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiLIVEPPY.
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.

A5VAG4-1 [UniParc]FASTAAdd to Basket

« Hide

MQVRFHKMHG LGNDFVVIDA RATAPVEMTA ARARALADRK TGVGCDQLIL    50
LEPSAVADAR MRIFNADGSE VEACGNATRC VVSLLGGSAR IETVAGLLEG 100
RSADGQVSVE LGEPRFDWDA IPLAYAMDTR AMPVAWEELE APMAANVGNP 150
HVVFFVPETD AVALDRLGPR IETDPLFPAR INVNVATVDD RANIRLRVWE 200
RGVGLTDACG TGACATAVSA IRAGLVDSPV RVTLPGGPLT IDWAPGRPIV 250
MTGPATHVFT AETDLSAFGA DSRG 274
Length:274
Mass (Da):28,927
Last modified:July 10, 2007 - v1
Checksum:iBCCDAFE707FFEC04
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000699 Genomic DNA. Translation: ABQ69280.1.
RefSeqiYP_001263418.1. NC_009511.1.

Genome annotation databases

EnsemblBacteriaiABQ69280; ABQ69280; Swit_2928.
GeneIDi5199935.
KEGGiswi:Swit_2928.
PATRICi23685041. VBISphWit55028_3464.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000699 Genomic DNA. Translation: ABQ69280.1 .
RefSeqi YP_001263418.1. NC_009511.1.

3D structure databases

ProteinModelPortali A5VAG4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 392499.Swit_2928.

Proteomic databases

PRIDEi A5VAG4.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABQ69280 ; ABQ69280 ; Swit_2928 .
GeneIDi 5199935.
KEGGi swi:Swit_2928.
PATRICi 23685041. VBISphWit55028_3464.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci SWIT392499:GHZK-2962-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: RW1 / DSM 6014 / JCM 10273.

Entry informationi

Entry nameiDAPF_SPHWW
AccessioniPrimary (citable) accession number: A5VAG4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 10, 2007
Last modified: June 11, 2014
This is version 49 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

Documents

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

External Data

Dasty 3

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