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Q2Y5Z0

- DAPF_NITMU

UniProt

Q2Y5Z0 - DAPF_NITMU

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Nitrosospira multiformis (strain ATCC 25196 / NCIMB 11849)
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 sitei13 – 131SubstrateUniRule annotation
Binding sitei46 – 461SubstrateUniRule annotation
Binding sitei65 – 651SubstrateUniRule annotation
Active sitei74 – 741Proton donor/acceptorUniRule annotation
Binding sitei158 – 1581SubstrateUniRule annotation
Sitei160 – 1601Important for catalytic activityUniRule annotation
Binding sitei191 – 1911SubstrateUniRule annotation
Sitei209 – 2091Important for catalytic activityUniRule annotation
Active sitei218 – 2181Proton 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

BioCyciNMUL323848:GKEC-2588-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:Nmul_A2542
OrganismiNitrosospira multiformis (strain ATCC 25196 / NCIMB 11849)
Taxonomic identifieri323848 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNitrosomonadalesNitrosomonadaceaeNitrosospira
ProteomesiUP000002718: 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 – 277277Diaminopimelate epimerasePRO_1000011918Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi74 ↔ 218

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi323848.Nmul_A2542.

Structurei

3D structure databases

ProteinModelPortaliQ2Y5Z0.
SMRiQ2Y5Z0. Positions 3-275.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni74 – 763Substrate bindingUniRule annotation
Regioni209 – 2102Substrate bindingUniRule annotation
Regioni219 – 2202Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

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.

Q2Y5Z0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKLKFTKMHG LGNDFIVIDA VNQQISLSPE QLRRLADRHL GVGCDQILLI
60 70 80 90 100
EKAEGDADFR YRIFNADGGE VEQCGNGARC FVRYVHDHGM TDKQQVRIET
110 120 130 140 150
LSGVVIPELE ADGEVTVNMG VPKFDPVEIP FIAEQRAPTY SLSLDDRQVE
160 170 180 190 200
ISSVSMGNPH AVQVVSDLDN APVLTEGPVI EKHSRFPQRV NAGYMQVVDP
210 220 230 240 250
HHIRLRVYER GAGETLACGT GACAAAVAGI QRGLLESPVR VSFSTGDLFI
260 270
RWEGENQPVW MTGPAVAVFD GEIELQF
Length:277
Mass (Da):30,471
Last modified:December 20, 2005 - v1
Checksum:iDF6BB6039E08BB1C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000103 Genomic DNA. Translation: ABB75831.1.
RefSeqiWP_011381830.1. NC_007614.1.
YP_413223.1. NC_007614.1.

Genome annotation databases

EnsemblBacteriaiABB75831; ABB75831; Nmul_A2542.
GeneIDi3784047.
KEGGinmu:Nmul_A2542.
PATRICi22728804. VBINitMul110821_2950.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000103 Genomic DNA. Translation: ABB75831.1 .
RefSeqi WP_011381830.1. NC_007614.1.
YP_413223.1. NC_007614.1.

3D structure databases

ProteinModelPortali Q2Y5Z0.
SMRi Q2Y5Z0. Positions 3-275.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 323848.Nmul_A2542.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABB75831 ; ABB75831 ; Nmul_A2542 .
GeneIDi 3784047.
KEGGi nmu:Nmul_A2542.
PATRICi 22728804. VBINitMul110821_2950.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci NMUL323848:GKEC-2588-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 chromosome 1 of Nitrosospira multiformis ATCC 25196."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Lykidis A., Richardson P.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 25196 / NCIMB 11849.

Entry informationi

Entry nameiDAPF_NITMU
AccessioniPrimary (citable) accession number: Q2Y5Z0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: December 20, 2005
Last modified: November 26, 2014
This is version 62 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