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Protein

Putative diaminopimelate epimerase, chloroplastic

Gene

DAPF

Organism
Oryza sativa subsp. indica (Rice)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.

Pathway: L-lysine biosynthesis via DAP pathway

This protein is involved in step 1 of the subpathway that synthesizes DL-2,6-diaminopimelate from LL-2,6-diaminopimelate.
Proteins known to be involved in this subpathway in this organism are:
  1. Putative diaminopimelate epimerase, chloroplastic (DAPF)
This subpathway is part of the pathway L-lysine biosynthesis via DAP pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes DL-2,6-diaminopimelate from LL-2,6-diaminopimelate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei145 – 1451By similarity
Active sitei300 – 3001By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative diaminopimelate epimerase, chloroplastic (EC:5.1.1.7)
Short name:
DAP epimerase
Gene namesi
Name:DAPF
ORF Names:OsI_037517
OrganismiOryza sativa subsp. indica (Rice)
Taxonomic identifieri39946 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
ProteomesiUP000007015 Componenti: Chromosome 12

Organism-specific databases

GrameneiA2ZLS4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 4747ChloroplastSequence AnalysisAdd
BLAST
Chaini48 – 357310Putative diaminopimelate epimerase, chloroplasticPRO_0000307180Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi39946.BGIOSGA037614-PA.

Structurei

3D structure databases

ProteinModelPortaliA2ZLS4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi58 – 625Poly-Ala

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
OMAiMKFTKMH.

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.

Sequence processingi: The displayed sequence is further processed into a mature form.

A2ZLS4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSATAAATA TIAAAAAAAA KLAATPAPAP SRRRLTLRGN PTARRCVAAM
60 70 80 90 100
AVSTPRSAAA AAFLERRESE RALHFVKYQG LGNDFIMMDN RDSAVPKVTP
110 120 130 140 150
EEAAKLCDRN FGVGADGVIF VMPGVNGADY TMRIFNSDGS EPEMCGNGVR
160 170 180 190 200
CFARFIAELE NLQGTHSFKI HTGAGLIIPE IQNDGKVKVD MGQPILSGPD
210 220 230 240 250
IPTKLPSTKN EAVVQADLAV DGSTWQVTCV SMGNPHCVTF GTKELKVLHV
260 270 280 290 300
DDLKLSDIGP KFEHHEMFPA RTNTEFVEVL SRSHLKMRVW ERGAGATLAC
310 320 330 340 350
GTGACAVVVA AVLEGRAERK CVVDLPGGPL EIEWREDDNH IYMTGPAEAV

FYGSAVH
Length:357
Mass (Da):38,075
Last modified:March 20, 2007 - v1
Checksum:i4454E4D184C04096
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CM000137 Genomic DNA. Translation: EAY83558.1.

Genome annotation databases

EnsemblPlantsiBGIOSGA037614-TA; BGIOSGA037614-PA; BGIOSGA037614.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CM000137 Genomic DNA. Translation: EAY83558.1.

3D structure databases

ProteinModelPortaliA2ZLS4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39946.BGIOSGA037614-PA.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiBGIOSGA037614-TA; BGIOSGA037614-PA; BGIOSGA037614.

Organism-specific databases

GrameneiA2ZLS4.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
OMAiMKFTKMH.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.

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]
ProtoNetiSearch...

Publicationsi

  1. "The genomes of Oryza sativa: a history of duplications."
    Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.
    , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
    PLoS Biol. 3:266-281(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. 93-11.

Entry informationi

Entry nameiDAPF_ORYSI
AccessioniPrimary (citable) accession number: A2ZLS4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 23, 2007
Last sequence update: March 20, 2007
Last modified: June 24, 2015
This is version 46 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.