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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Methylobacterium nodulans (strain LMG 21967 / CNCM I-2342 / ORS 2060)
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
Ordered Locus Names:Mnod_1308Imported
OrganismiMethylobacterium nodulans (strain LMG 21967 / CNCM I-2342 / ORS 2060)Imported
Taxonomic identifieri460265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesMethylobacteriaceaeMethylobacterium
Proteomesi
  • UP000008207 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Protein-protein interaction databases

STRINGi460265.Mnod_1308.

Structurei

3D structure databases

ProteinModelPortaliB8IKV1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini139 – 349ATP-graspInterPro annotationAdd BLAST211

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CPF. Bacteria.
COG1181. LUCA.
HOGENOMiHOG000011593.
KOiK01921.
OMAiMDKIAMK.
OrthoDBiPOG091H06GK.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
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.
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.
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.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.

Sequencei

Sequence statusi: Complete.

B8IKV1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRRKVALLFG GRSAEHEVSI LSAGNVARAL DPDRYAVTPI AIDKETGAWR
60 70 80 90 100
LCPALAAGEA PAMGQDGPLV AFLPGGGGRL AILSDAAALS EPFDVVVPVL
110 120 130 140 150
HGPNGEDGTV QGALDLAGVP YVGSGVVGSA AAMDKDVAKR LMRDAGLPMI
160 170 180 190 200
VPFLAATARR PVSYADAAAA LESRTLFVKP ANMGSSVGVS RVTDPAQFDR
210 220 230 240 250
AAAHAFGYDE KILIERAVPQ AREIECAVLE TPEGELRVSP PGEIAPAAAH
260 270 280 290 300
GFYGYDAKYL DPDGAALLIP AALDAARADR MRELAARAFA ALACAGLARV
310 320 330 340 350
DLFLDPADPA GIFVNEVNTL PGFTAISMYP KLWDAAGLAP PALMDALIAH
360 370
ALARHARAVA TGRAAPRPGP DAAGAPMR
Length:378
Mass (Da):38,945
Last modified:March 3, 2009 - v1
Checksum:iEA63ADC57D670C59
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001349 Genomic DNA. Translation: ACL56308.1.
RefSeqiWP_015928004.1. NC_011894.1.

Genome annotation databases

EnsemblBacteriaiACL56308; ACL56308; Mnod_1308.
KEGGimno:Mnod_1308.
PATRICi22544850. VBIMetNod76414_2163.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001349 Genomic DNA. Translation: ACL56308.1.
RefSeqiWP_015928004.1. NC_011894.1.

3D structure databases

ProteinModelPortaliB8IKV1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi460265.Mnod_1308.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL56308; ACL56308; Mnod_1308.
KEGGimno:Mnod_1308.
PATRICi22544850. VBIMetNod76414_2163.

Phylogenomic databases

eggNOGiENOG4105CPF. Bacteria.
COG1181. LUCA.
HOGENOMiHOG000011593.
KOiK01921.
OMAiMDKIAMK.
OrthoDBiPOG091H06GK.

Enzyme and pathway databases

UniPathwayiUPA00219.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
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.
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.
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.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiB8IKV1_METNO
AccessioniPrimary (citable) accession number: B8IKV1
Entry historyiIntegrated into UniProtKB/TrEMBL: March 3, 2009
Last sequence update: March 3, 2009
Last modified: February 15, 2017
This is version 61 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference 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.