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Q2JLR0

- DAPF_SYNJB

UniProt

Q2JLR0 - DAPF_SYNJB

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Protein

Diaminopimelate epimerase

Gene
dapF, CYB_1371
Organism
Synechococcus sp. (strain JA-2-3B'a(2-13)) (Cyanobacteria bacterium Yellowstone B-Prime)
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 sitei15 – 151Substrate By similarity
Binding sitei49 – 491Substrate By similarity
Binding sitei68 – 681Substrate By similarity
Active sitei77 – 771Proton donor/acceptor By similarity
Binding sitei165 – 1651Substrate By similarity
Sitei167 – 1671Important for catalytic activity By similarity
Binding sitei201 – 2011Substrate By similarity
Sitei219 – 2191Important for catalytic activity By similarity
Active sitei228 – 2281Proton 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

BioCyciSSP321332:GH1B-1371-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:CYB_1371
OrganismiSynechococcus sp. (strain JA-2-3B'a(2-13)) (Cyanobacteria bacterium Yellowstone B-Prime)
Taxonomic identifieri321332 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
ProteomesiUP000001938: 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 – 285285Diaminopimelate epimeraseUniRule annotationPRO_1000011975Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi77 ↔ 228UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi321332.CYB_1371.

Structurei

3D structure databases

ProteinModelPortaliQ2JLR0.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni12 – 132Substrate binding By similarity
Regioni77 – 793Substrate binding By similarity
Regioni219 – 2202Substrate binding By similarity
Regioni229 – 2302Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220467.
KOiK01778.
OMAiVFDRYFL.
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.

Q2JLR0-1 [UniParc]FASTAAdd to Basket

« Hide

MTPRLSFHKY QGLGNDFILV DNRWQSQPCL SPEEAVALCN RRFGVGADGV    50
IFLLPGQEGA DFSMRLFNSD GSEAEMCGNG IRCLARFLQD LGIPGRDGAY 100
QIHTLAGRIV PQVRADGLVT VDMGIPRLLA KQIPTTLVEP DEKVIRQPLA 150
VAGREWRVTA VSMGNPHCVV FLEEEGSLEE LDLAAVGPLF EHHPAFPERT 200
NTEFVQVLSP TRLRLRVWER GAGATLACGT GACAVLVAAV LEERAESQAT 250
VELPGGNLEI RWDPSTQHVW MTGPALHVFS GTTAG 285
Length:285
Mass (Da):30,949
Last modified:March 7, 2006 - v1
Checksum:i73DAB469419A3471
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000240 Genomic DNA. Translation: ABD02344.1.
RefSeqiWP_011432994.1. NC_007776.1.
YP_477607.1. NC_007776.1.

Genome annotation databases

EnsemblBacteriaiABD02344; ABD02344; CYB_1371.
GeneIDi3901238.
KEGGicyb:CYB_1371.
PATRICi23805070. VBISynSp29577_1388.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000240 Genomic DNA. Translation: ABD02344.1 .
RefSeqi WP_011432994.1. NC_007776.1.
YP_477607.1. NC_007776.1.

3D structure databases

ProteinModelPortali Q2JLR0.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 321332.CYB_1371.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABD02344 ; ABD02344 ; CYB_1371 .
GeneIDi 3901238.
KEGGi cyb:CYB_1371.
PATRICi 23805070. VBISynSp29577_1388.

Phylogenomic databases

eggNOGi COG0253.
HOGENOMi HOG000220467.
KOi K01778.
OMAi VFDRYFL.
OrthoDBi EOG6ND0M5.

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci SSP321332:GH1B-1371-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. "Population level functional diversity in a microbial community revealed by comparative genomic and metagenomic analyses."
    Bhaya D., Grossman A.R., Steunou A.-S., Khuri N., Cohan F.M., Hamamura N., Melendrez M.C., Bateson M.M., Ward D.M., Heidelberg J.F.
    ISME J. 1:703-713(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: JA-2-3B'a(2-13).

Entry informationi

Entry nameiDAPF_SYNJB
AccessioniPrimary (citable) accession number: Q2JLR0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 7, 2006
Last modified: September 3, 2014
This is version 59 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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