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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Prochlorococcus marinus (strain NATL2A)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Cell wall formation.UniRule annotation

Catalytic activityi

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

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 2 magnesium or manganese ions per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi297 – 2971Magnesium or manganese 1UniRule annotation
Metal bindingi311 – 3111Magnesium or manganese 1UniRule annotation
Metal bindingi311 – 3111Magnesium or manganese 2UniRule annotation
Metal bindingi313 – 3131Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi171 – 22656ATPUniRule annotationAdd
BLAST

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. D-alanine-D-alanine ligase activity Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. manganese ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. cell wall organization Source: UniProtKB-KW
  2. peptidoglycan biosynthetic process Source: UniProtKB-HAMAP
  3. regulation of cell shape Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Cell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis

Keywords - Ligandi

ATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciPMAR59920:GI1O-1722-MONOMER.
UniPathwayiUPA00219.

Names & Taxonomyi

Protein namesi
Recommended name:
D-alanine--D-alanine ligaseUniRule annotation (EC:6.3.2.4UniRule annotation)
Alternative name(s):
D-Ala-D-Ala ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
Gene namesi
Name:ddlUniRule annotation
Ordered Locus Names:PMN2A_0872
OrganismiProchlorococcus marinus (strain NATL2A)
Taxonomic identifieri59920 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaProchloralesProchlorococcaceaeProchlorococcus
ProteomesiUP000002535 Componenti: Chromosome

Subcellular locationi

  1. Cytoplasm 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 – 348348D-alanine--D-alanine ligasePRO_1000030484Add
BLAST

Proteomic databases

PRIDEiQ46JG5.

Interactioni

Protein-protein interaction databases

STRINGi59920.PMN2A_0872.

Structurei

3D structure databases

ProteinModelPortaliQ46JG5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini136 – 344209ATP-graspUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the D-alanine--D-alanine ligase family.UniRule annotation
Contains 1 ATP-grasp domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG1181.
HOGENOMiHOG000011593.
KOiK01921.
OMAiYRIAFIG.
OrthoDBiEOG64BQ73.
PhylomeDBiQ46JG5.

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.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR000291. D-Ala_lig_Van_CS.
IPR005905. D_ala_D_ala.
IPR011095. Dala_Dala_lig_C.
IPR011127. Dala_Dala_lig_N.
IPR016185. PreATP-grasp_dom.
[Graphical view]
PANTHERiPTHR23132. PTHR23132. 1 hit.
PfamiPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
[Graphical view]
PIRSFiPIRSF039102. Ddl/VanB. 1 hit.
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q46JG5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFSNKQVIGV VFGGKSSEHE VSIKSAKTIY NALRYLSNKE RYIARPIYID
60 70 80 90 100
KYGYWHDYIF SESILFDKKD HLIFEERRIN LTNLSNMEDI DVWFPCLHGP
110 120 130 140 150
NGEDGVIQGL FKSTGKPFVG SGVLGSALGM DKIAMKSVFK SYNLPQVPYI
160 170 180 190 200
SLNKPDIQNN LYMKSIYEQI NKIISYPCFI KPANLGSSVG ITKAYSKEEF
210 220 230 240 250
IAGIEFAAKY DERIIVEKSI EGRELECGIL GKSIMKSSVV GEVKFQTDWY
260 270 280 290 300
TYESKYNANL SSTIIPADLN IEISNKIQKL AIEACKAINA YGLARVDFFY
310 320 330 340
QESTQQIYIN EVNTLPGFTK TSMYPTLWEA SGLKLEKLVA NLIEIAKE
Length:348
Mass (Da):39,386
Last modified:September 13, 2005 - v1
Checksum:i4E52A84AB0AE5D3D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000095 Genomic DNA. Translation: AAZ58363.1.
RefSeqiWP_011294960.1. NC_007335.2.
YP_292066.1. NC_007335.2.

Genome annotation databases

EnsemblBacteriaiAAZ58363; AAZ58363; PMN2A_0872.
KEGGipmn:PMN2A_0872.
PATRICi23025535. VBIProMar14922_1697.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000095 Genomic DNA. Translation: AAZ58363.1.
RefSeqiWP_011294960.1. NC_007335.2.
YP_292066.1. NC_007335.2.

3D structure databases

ProteinModelPortaliQ46JG5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi59920.PMN2A_0872.

Proteomic databases

PRIDEiQ46JG5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAZ58363; AAZ58363; PMN2A_0872.
KEGGipmn:PMN2A_0872.
PATRICi23025535. VBIProMar14922_1697.

Phylogenomic databases

eggNOGiCOG1181.
HOGENOMiHOG000011593.
KOiK01921.
OMAiYRIAFIG.
OrthoDBiEOG64BQ73.
PhylomeDBiQ46JG5.

Enzyme and pathway databases

UniPathwayiUPA00219.
BioCyciPMAR59920:GI1O-1722-MONOMER.

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.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR000291. D-Ala_lig_Van_CS.
IPR005905. D_ala_D_ala.
IPR011095. Dala_Dala_lig_C.
IPR011127. Dala_Dala_lig_N.
IPR016185. PreATP-grasp_dom.
[Graphical view]
PANTHERiPTHR23132. PTHR23132. 1 hit.
PfamiPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
[Graphical view]
PIRSFiPIRSF039102. Ddl/VanB. 1 hit.
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NATL2A.

Entry informationi

Entry nameiDDL_PROMT
AccessioniPrimary (citable) accession number: Q46JG5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: September 13, 2005
Last modified: April 1, 2015
This is version 73 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

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.