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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
alpha proteobacterium HIMB5
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Cell wall formation.UniRule annotationSAAS annotation

Catalytic activityi

ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine.UniRule annotationSAAS annotation

Cofactori

Protein has several cofactor binding sites:
  • Mg2+SAAS annotation
  • Mn2+SAAS annotation

Pathwayi: peptidoglycan biosynthesis

This protein is involved in the pathway peptidoglycan biosynthesis, which is part of Cell wall biogenesis.UniRule annotationSAAS annotation
View all proteins of this organism that are known to be involved in the pathway peptidoglycan biosynthesis and in Cell wall biogenesis.

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigaseUniRule annotationSAAS annotationImported
Biological processCell shape, Cell wall biogenesis/degradationUniRule annotationSAAS annotation, Peptidoglycan synthesisUniRule annotationSAAS annotation
LigandATP-bindingSAAS annotation, MagnesiumSAAS annotation, ManganeseSAAS annotation, Metal-bindingSAAS annotation, Nucleotide-binding

Enzyme and pathway databases

UniPathwayiUPA00219.

Names & Taxonomyi

Protein namesi
Recommended name:
D-alanine--D-alanine ligaseUniRule annotationSAAS annotation (EC:6.3.2.4UniRule annotationSAAS annotation)
Alternative name(s):
D-Ala-D-Ala ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
Gene namesi
Name:ddlUniRule annotation
ORF Names:HIMB5_00002020Imported
Organismialpha proteobacterium HIMB5Imported
Taxonomic identifieri859653 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaPelagibacteralesPelagibacteraceae
Proteomesi
  • UP000006098 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini100 – 297ATP-graspInterPro annotationAdd BLAST198

Sequence similaritiesi

Belongs to the D-alanine--D-alanine ligase family.UniRule annotationSAAS annotation

Phylogenomic databases

KOiK01921.
OrthoDBiPOG091H00GT.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 1 hit.
HAMAPiMF_00047. Dala_Dala_lig. 1 hit.
InterProiView protein in InterPro
IPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR005905. D_ala_D_ala.
IPR011095. Dala_Dala_lig_C.
IPR011127. Dala_Dala_lig_N.
IPR016185. PreATP-grasp_dom.
PfamiView protein in Pfam
PF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
PIRSFiPIRSF039102. Ddl/VanB. 1 hit.
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiView protein in PROSITE
PS50975. ATP_GRASP. 1 hit.

Sequencei

Sequence statusi: Complete.

J9YVG8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKKILILSG GISKERSISL DTGNQVAKEL KKKYSVKICE PNNDLEKNIK
60 70 80 90 100
KFKPHKIFNA LHGQFGEDGY IQTIIENYKI PYTHSGVIAS AIAMDKDISK
110 120 130 140 150
RIFLKNKILT PKYINFTFDK NPKELTKTVE KILKFPVVVK PINEGSSVNV
160 170 180 190 200
FICTKKNFLK KVELLKSYKK IMIEEFIGGR EIQVAILGKK KLGAIELKPK
210 220 230 240 250
RKFYDYTAKY KKSAKTKHII PVQLPKKKLD LVLNISLKAH NLIGCKGVTR
260 270 280 290 300
SDFKFYNNKF YLLEINTQPG MTKLSLVPEI AAYRGISFFD LLEWMLKDAS

INR
Length:303
Mass (Da):34,751
Last modified:November 28, 2012 - v1
Checksum:i35B767FF6C9770C4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003809 Genomic DNA. Translation: AFS46971.1.
RefSeqiWP_014952803.1. NC_018643.1.

Genome annotation databases

EnsemblBacteriaiAFS46971; AFS46971; HIMB5_00002020.
KEGGiapm:HIMB5_00002020.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003809 Genomic DNA. Translation: AFS46971.1.
RefSeqiWP_014952803.1. NC_018643.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAFS46971; AFS46971; HIMB5_00002020.
KEGGiapm:HIMB5_00002020.

Phylogenomic databases

KOiK01921.
OrthoDBiPOG091H00GT.

Enzyme and pathway databases

UniPathwayiUPA00219.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 1 hit.
HAMAPiMF_00047. Dala_Dala_lig. 1 hit.
InterProiView protein in InterPro
IPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR005905. D_ala_D_ala.
IPR011095. Dala_Dala_lig_C.
IPR011127. Dala_Dala_lig_N.
IPR016185. PreATP-grasp_dom.
PfamiView protein in Pfam
PF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
PIRSFiPIRSF039102. Ddl/VanB. 1 hit.
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiView protein in PROSITE
PS50975. ATP_GRASP. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiJ9YVG8_9PROT
AccessioniPrimary (citable) accession number: J9YVG8
Entry historyiIntegrated into UniProtKB/TrEMBL: November 28, 2012
Last sequence update: November 28, 2012
Last modified: February 15, 2017
This is version 32 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported

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 one 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.