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Q5N013

- DAPF_SYNP6

UniProt

Q5N013 - DAPF_SYNP6

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (Anacystis nidulans)
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 sitei47 – 471SubstrateUniRule annotation
Binding sitei66 – 661SubstrateUniRule annotation
Active sitei75 – 751Proton donor/acceptorUniRule annotation
Binding sitei162 – 1621SubstrateUniRule annotation
Sitei164 – 1641Important for catalytic activityUniRule annotation
Binding sitei195 – 1951SubstrateUniRule annotation
Sitei213 – 2131Important for catalytic activityUniRule annotation
Active sitei222 – 2221Proton 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

BioCyciSELO269084:GCDQ-2223-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:syc2167_c
OrganismiSynechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (Anacystis nidulans)
Taxonomic identifieri269084 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
ProteomesiUP000001175: 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 – 280280Diaminopimelate epimerasePRO_1000011976Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 222

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi269084.syc2167_c.

Structurei

3D structure databases

ProteinModelPortaliQ5N013.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni75 – 773Substrate bindingUniRule annotation
Regioni213 – 2142Substrate bindingUniRule annotation
Regioni223 – 2242Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220467.
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.

Q5N013-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSLQFAKYHG LGNDFILVDN RESGEPRLTP EQAVQVCDRN FGVGADGVIF
60 70 80 90 100
ALPGSGDSDY VMRIFNSDGS EPEMCGNGIR CLAKFLSELD GGAQSRYRIA
110 120 130 140 150
TGAGLIVPTL TETGLVTVDM GPAYLKPVEI PTTLTGTGDR VVEADLEVGD
160 170 180 190 200
RPWKVTTVSM GNPHCITFVE DVAAVPLAEI GPLFEHHPVF PQRTNTEFVE
210 220 230 240 250
VVRPDYLKMR VWERGAGATL ACGTGACATL VAAVLTGRSD RQATVELPGG
260 270 280
PLQIEWREDG HLFMTGPAVK VFSGSMELAA
Length:280
Mass (Da):29,971
Last modified:February 1, 2005 - v1
Checksum:i028A3310F9437BAC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP008231 Genomic DNA. Translation: BAD80357.1.
RefSeqiWP_011244477.1. NC_006576.1.
YP_172877.1. NC_006576.1.

Genome annotation databases

EnsemblBacteriaiBAD80357; BAD80357; syc2167_c.
GeneIDi3200209.
KEGGisyc:syc2167_c.
PATRICi32490478. VBISynElo117686_2469.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP008231 Genomic DNA. Translation: BAD80357.1 .
RefSeqi WP_011244477.1. NC_006576.1.
YP_172877.1. NC_006576.1.

3D structure databases

ProteinModelPortali Q5N013.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 269084.syc2167_c.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD80357 ; BAD80357 ; syc2167_c .
GeneIDi 3200209.
KEGGi syc:syc2167_c.
PATRICi 32490478. VBISynElo117686_2469.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci SELO269084:GCDQ-2223-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 nucleotide sequence of the freshwater unicellular cyanobacterium Synechococcus elongatus PCC 6301 chromosome: gene content and organization."
    Sugita C., Ogata K., Shikata M., Jikuya H., Takano J., Furumichi M., Kanehisa M., Omata T., Sugiura M., Sugita M.
    Photosyn. Res. 93:55-67(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 27144 / PCC 6301 / SAUG 1402/1.

Entry informationi

Entry nameiDAPF_SYNP6
AccessioniPrimary (citable) accession number: Q5N013
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: February 1, 2005
Last modified: October 29, 2014
This is version 65 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