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Q4FP10

- DAPF_PELUB

UniProt

Q4FP10 - DAPF_PELUB

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Pelagibacter ubique (strain HTCC1062)
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 sitei45 – 451SubstrateUniRule annotation
Binding sitei63 – 631SubstrateUniRule annotation
Active sitei72 – 721Proton 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

BioCyciCPEL335992:GH3Z-257-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:SAR11_0257
OrganismiPelagibacter ubique (strain HTCC1062)
Taxonomic identifieri335992 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSAR11 clusterCandidatus Pelagibacter
ProteomesiUP000002528: 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 – 274274Diaminopimelate epimerasePRO_1000011923Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi72 ↔ 218

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi335992.SAR11_0257.

Structurei

3D structure databases

ProteinModelPortaliQ4FP10.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni72 – 743Substrate 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.
OMAiKMRIFNN.
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.

Q4FP10-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDIKAFKMDG LGNDFVIIDQ RSQDFNLDKD QIIKICDRSF IGCDQLILIK
60 70 80 90 100
KNKEIDANVE FFNSDGSISG ACGNGTRCVA DLLSKESGKK EITLLTTSGS
110 120 130 140 150
LKSKILGNNL VETEIGIPKV NWQEIPLSKQ LDTQDLKIEI IDRNNTKHIG
160 170 180 190 200
GIAINVGNPH IIFFVDDIEA FDLKNIGPKI ENHPLFPEKC NVTLAKVINR
210 220 230 240 250
NLIKVKVWER GAGLTKACGT AACATAVAAN INNLVEKTTD IEFVLGSLTI
260 270
SIDERNSIHM KGPVSDIKNI NIKL
Length:274
Mass (Da):30,102
Last modified:August 30, 2005 - v1
Checksum:i4DDA04FC3A543FB6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000084 Genomic DNA. Translation: AAZ21079.1.
RefSeqiWP_011281577.1. NC_007205.1.
YP_265682.1. NC_007205.1.

Genome annotation databases

EnsemblBacteriaiAAZ21079; AAZ21079; SAR11_0257.
GeneIDi3517586.
KEGGipub:SAR11_0257.
PATRICi31989971. VBICanPel5618_0256.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000084 Genomic DNA. Translation: AAZ21079.1 .
RefSeqi WP_011281577.1. NC_007205.1.
YP_265682.1. NC_007205.1.

3D structure databases

ProteinModelPortali Q4FP10.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 335992.SAR11_0257.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAZ21079 ; AAZ21079 ; SAR11_0257 .
GeneIDi 3517586.
KEGGi pub:SAR11_0257.
PATRICi 31989971. VBICanPel5618_0256.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci CPEL335992:GH3Z-257-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: HTCC1062.

Entry informationi

Entry nameiDAPF_PELUB
AccessioniPrimary (citable) accession number: Q4FP10
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: August 30, 2005
Last modified: October 29, 2014
This is version 61 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