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Q1QHJ3

- DAPF_NITHX

UniProt

Q1QHJ3 - DAPF_NITHX

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Nitrobacter hamburgensis (strain X14 / DSM 10229)
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 sitei17 – 171SubstrateUniRule annotation
Binding sitei49 – 491SubstrateUniRule annotation
Binding sitei69 – 691SubstrateUniRule annotation
Active sitei78 – 781Proton donor/acceptorUniRule annotation
Binding sitei166 – 1661SubstrateUniRule annotation
Sitei168 – 1681Important for catalytic activityUniRule annotation
Binding sitei199 – 1991SubstrateUniRule annotation
Sitei217 – 2171Important for catalytic activityUniRule annotation
Active sitei226 – 2261Proton 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

BioCyciNHAM323097:GHP7-3631-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:Nham_3575
OrganismiNitrobacter hamburgensis (strain X14 / DSM 10229)
Taxonomic identifieri323097 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeNitrobacter
ProteomesiUP000001953: 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 – 290290Diaminopimelate epimerasePRO_1000011917Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi78 ↔ 226

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi323097.Nham_3575.

Structurei

3D structure databases

ProteinModelPortaliQ1QHJ3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni14 – 152Substrate bindingUniRule annotation
Regioni78 – 803Substrate bindingUniRule annotation
Regioni217 – 2182Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiDGVWMTG.
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.

Q1QHJ3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MGTLANHAFS KMNGIGNEIV VVDLRDRPAA VTAEEARAVA SPGGVPYDQL
60 70 80 90 100
MVLQPPRLPG TEAFVSIYNN DGSEANACGN GMRCVARQVF EATGKAALTF
110 120 130 140 150
ETRAGLLSCW QGPAPGLYTV DMGPPKFGWR DIPLAEEFRD TRYIELQVGP
160 170 180 190 200
IDAPVLHSPS VVSMGNPHAI FWVDDVNAHD LERFGPLLEN HPIFPERANI
210 220 230 240 250
TLAHIAGRDR IVMRTWERGA GMTKACGSAA CATAVAAARL KRADRVVDMV
260 270 280 290
LPGGGLTIEW RERDDHVLMT GPAVFEYAGT FDPALFASVA
Length:290
Mass (Da):31,239
Last modified:May 16, 2006 - v1
Checksum:i239D0F0A9204E114
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000319 Genomic DNA. Translation: ABE64304.1.
RefSeqiYP_578764.1. NC_007964.1.

Genome annotation databases

EnsemblBacteriaiABE64304; ABE64304; Nham_3575.
GeneIDi4030903.
KEGGinha:Nham_3575.
PATRICi22695205. VBINitHam61822_4597.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000319 Genomic DNA. Translation: ABE64304.1 .
RefSeqi YP_578764.1. NC_007964.1.

3D structure databases

ProteinModelPortali Q1QHJ3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 323097.Nham_3575.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABE64304 ; ABE64304 ; Nham_3575 .
GeneIDi 4030903.
KEGGi nha:Nham_3575.
PATRICi 22695205. VBINitHam61822_4597.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci NHAM323097:GHP7-3631-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: X14 / DSM 10229.

Entry informationi

Entry nameiDAPF_NITHX
AccessioniPrimary (citable) accession number: Q1QHJ3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: May 16, 2006
Last modified: October 29, 2014
This is version 58 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