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B1XP39

- DAPF_SYNP2

UniProt

B1XP39 - DAPF_SYNP2

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
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 sitei164 – 1641SubstrateUniRule annotation
Sitei166 – 1661Important for catalytic activityUniRule annotation
Binding sitei197 – 1971SubstrateUniRule annotation
Sitei215 – 2151Important for catalytic activityUniRule annotation
Active sitei224 – 2241Proton 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

BioCyciSSP32049:GKF7-1643-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:SYNPCC7002_A1642
OrganismiSynechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
Taxonomic identifieri32049 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
ProteomesiUP000001688: 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 – 281281Diaminopimelate epimerasePRO_1000099269Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 224

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi32049.SYNPCC7002_A1642.

Structurei

3D structure databases

ProteinModelPortaliB1XP39.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni75 – 773Substrate bindingUniRule annotation
Regioni215 – 2162Substrate bindingUniRule annotation
Regioni225 – 2262Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiRISEMEI.
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.

B1XP39-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVLEFTKYQG LGNDFILLDN RQQTTPLVTP EQAIQLCDRH FGIGADGVIF
60 70 80 90 100
ALPGQAGADY TMRIFNSDGS EPEMCGNGIR CLARFIDHLE GGNAPGKTYS
110 120 130 140 150
IHTLAGMIRP RLETDALVRV DMGEPILTAT DIPTTLKDSN GQAVNQPLEV
160 170 180 190 200
AGKTWMVTCV SMGNPHCITF VEDVAAIALE VIGKDFEHHP AFPQRINTEF
210 220 230 240 250
IEVVRPDYIK MRVWERGAGI TLACGTGACA SVVAGVLTGH CDRLCTVELP
260 270 280
GGCLQIEWSA ADNHIYMTGP AAISFQGQVT L
Length:281
Mass (Da):30,364
Last modified:May 20, 2008 - v1
Checksum:iAA2334C19A558FC2
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000951 Genomic DNA. Translation: ACA99632.1.
RefSeqiWP_012307255.1. NC_010475.1.
YP_001734888.1. NC_010475.1.

Genome annotation databases

EnsemblBacteriaiACA99632; ACA99632; SYNPCC7002_A1642.
GeneIDi6055880.
KEGGisyp:SYNPCC7002_A1642.
PATRICi23817902. VBISynSp37135_1894.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000951 Genomic DNA. Translation: ACA99632.1 .
RefSeqi WP_012307255.1. NC_010475.1.
YP_001734888.1. NC_010475.1.

3D structure databases

ProteinModelPortali B1XP39.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 32049.SYNPCC7002_A1642.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACA99632 ; ACA99632 ; SYNPCC7002_A1642 .
GeneIDi 6055880.
KEGGi syp:SYNPCC7002_A1642.
PATRICi 23817902. VBISynSp37135_1894.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci SSP32049:GKF7-1643-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 Synechococcus sp. PCC 7002."
    Li T., Zhao J., Zhao C., Liu Z., Zhao F., Marquardt J., Nomura C.T., Persson S., Detter J.C., Richardson P.M., Lanz C., Schuster S.C., Wang J., Li S., Huang X., Cai T., Yu Z., Luo J., Zhao J., Bryant D.A.
    Submitted (FEB-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 27264 / PCC 7002 / PR-6.

Entry informationi

Entry nameiDAPF_SYNP2
AccessioniPrimary (citable) accession number: B1XP39
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: May 20, 2008
Last modified: October 29, 2014
This is version 48 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