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B7KQM2

- DAPF_METC4

UniProt

B7KQM2 - DAPF_METC4

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Protein
Diaminopimelate epimerase
Gene
dapF, Mchl_2947
Organism
Methylobacterium extorquens (strain CM4 / NCIMB 13688) (Methylobacterium chloromethanicum)
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 sitei17 – 171Substrate By similarity
Binding sitei49 – 491Substrate By similarity
Binding sitei69 – 691Substrate By similarity
Active sitei78 – 781Proton donor/acceptor By similarity
Binding sitei171 – 1711Substrate By similarity
Sitei173 – 1731Important for catalytic activity By similarity
Binding sitei205 – 2051Substrate By similarity
Sitei223 – 2231Important for catalytic activity By similarity
Active sitei232 – 2321Proton 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

BioCyciMCHL440085:GCXT-3004-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:Mchl_2947
OrganismiMethylobacterium extorquens (strain CM4 / NCIMB 13688) (Methylobacterium chloromethanicum)
Taxonomic identifieri440085 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesMethylobacteriaceaeMethylobacterium
ProteomesiUP000002385: 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 – 296296Diaminopimelate epimeraseUniRule annotation
PRO_1000124420Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi78 ↔ 232UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi440085.Mchl_2947.

Structurei

3D structure databases

ProteinModelPortaliB7KQM2.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni78 – 803Substrate binding By similarity
Regioni223 – 2242Substrate binding By similarity
Regioni233 – 2342Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiRPAENGA.
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.

B7KQM2-1 [UniParc]FASTAAdd to Basket

« Hide

MSPLANRRFL KMHGAGNAIV VLDLRGTAVR VTPAEARAIA ADVHSRFDQL    50
MVVHDPVTPG TDAFMRIYNT DGSESGACGN GTRCVGYALL DDPAMARPAE 100
NGALTLETKA GLVAVKRITE RSFTVDMGQP RLRWDEIPLT EPFLDTRRIE 150
LQVGPIDDPI LHSPAAVSMG NPHAIFFVER DPDSYDLGRI GPLLEAHPIF 200
PERANISIAE VTSRDTIKLR VWERGAGLTL ACGTAACATV VAASRLRMIG 250
RAARVALPGG ELSIEWRADD HVLMTGPVYL EGEGTFSPDL FAGIDG 296
Length:296
Mass (Da):31,877
Last modified:February 10, 2009 - v1
Checksum:iF01A444D94EAD5F3
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001298 Genomic DNA. Translation: ACK83786.1.
RefSeqiYP_002421714.1. NC_011757.1.

Genome annotation databases

EnsemblBacteriaiACK83786; ACK83786; Mchl_2947.
GeneIDi7115754.
KEGGimch:Mchl_2947.
PATRICi22500176. VBIMetChl132133_2915.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001298 Genomic DNA. Translation: ACK83786.1 .
RefSeqi YP_002421714.1. NC_011757.1.

3D structure databases

ProteinModelPortali B7KQM2.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 440085.Mchl_2947.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACK83786 ; ACK83786 ; Mchl_2947 .
GeneIDi 7115754.
KEGGi mch:Mchl_2947.
PATRICi 22500176. VBIMetChl132133_2915.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci MCHL440085:GCXT-3004-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 of Methylobacterium chloromethanicum CM4."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Chertkov O., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Marx C., Richardson P.
    Submitted (DEC-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CM4 / NCIMB 13688.

Entry informationi

Entry nameiDAPF_METC4
AccessioniPrimary (citable) accession number: B7KQM2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: February 10, 2009
Last modified: June 11, 2014
This is version 36 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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