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B8DVN7

- DDL_BIFA0

UniProt

B8DVN7 - DDL_BIFA0

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Bifidobacterium animalis subsp. lactis (strain AD011)
Status
Reviewed - 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 bindingi328 – 3281Magnesium or manganese 1UniRule annotation
Metal bindingi341 – 3411Magnesium or manganese 1UniRule annotation
Metal bindingi341 – 3411Magnesium or manganese 2UniRule annotation
Metal bindingi343 – 3431Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi189 – 24759ATPUniRule 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

BioCyciBANI442563:GHG0-236-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:BLA_0236
OrganismiBifidobacterium animalis subsp. lactis (strain AD011)
Taxonomic identifieri442563 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeBifidobacterialesBifidobacteriaceaeBifidobacterium
ProteomesiUP000002456: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 378378D-alanine--D-alanine ligasePRO_1000117449Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi442563.BLA_0236.

Structurei

3D structure databases

ProteinModelPortaliB8DVN7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini149 – 374226ATP-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.
OMAiANDTQYR.
OrthoDBiEOG64BQ73.

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]
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.

B8DVN7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAKTRVAVLY GGKADEHSIS CISAASFMRA LDPELFEAVP IGITKTGTWF
60 70 80 90 100
VDGQDPLGWN LAEGLPEAVE TPDSREVVLT IGDGGDGFHA RNADGSLDSL
110 120 130 140 150
GHIDVVLPAL HGPFGEDGTI QGLFEMMGVP YVGCGVLASA ACMDKHYTKV
160 170 180 190 200
LLRAAGIPVA PGITLDTRHY DASDEFATDG EEFLRQVNEA GLQYPLFVKP
210 220 230 240 250
SRAGSSFGVT KVEQIGDAAA LAAAVFEASR HDWRVLVEQG IDAREIECAV
260 270 280 290 300
VRIHPTDPTR AALPGEVVLD RRSEGDDQFY DFDSKYMDSQ ASHTEIPAKI
310 320 330 340 350
GDDLIARVRE TAVRAFDAVD GMGLSRVDTF VTADGDVLVN EINTLPGCTS
360 370
ISMFPQAWEA MGIPFRTVVT DLIEGALA
Length:378
Mass (Da):40,445
Last modified:March 3, 2009 - v1
Checksum:i23FCACC423C71CB1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001213 Genomic DNA. Translation: ACL28538.1.
RefSeqiYP_002469114.1. NC_011835.1.

Genome annotation databases

EnsemblBacteriaiACL28538; ACL28538; BLA_0236.
GeneIDi7263647.
KEGGibla:BLA_0236.
PATRICi21103286. VBIBifAni98964_0251.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001213 Genomic DNA. Translation: ACL28538.1 .
RefSeqi YP_002469114.1. NC_011835.1.

3D structure databases

ProteinModelPortali B8DVN7.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 442563.BLA_0236.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL28538 ; ACL28538 ; BLA_0236 .
GeneIDi 7263647.
KEGGi bla:BLA_0236.
PATRICi 21103286. VBIBifAni98964_0251.

Phylogenomic databases

eggNOGi COG1181.
HOGENOMi HOG000011593.
KOi K01921.
OMAi ANDTQYR.
OrthoDBi EOG64BQ73.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci BANI442563:GHG0-236-MONOMER.

Family and domain databases

Gene3Di 3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 1 hit.
HAMAPi MF_00047. Dala_Dala_lig.
InterProi 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.
[Graphical view ]
PANTHERi PTHR23132. PTHR23132. 1 hit.
Pfami PF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 1 hit.
[Graphical view ]
SUPFAMi SSF52440. SSF52440. 1 hit.
TIGRFAMsi TIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEi PS50975. ATP_GRASP. 1 hit.
PS00843. DALA_DALA_LIGASE_1. 1 hit.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Genome sequence of the probiotic bacterium Bifidobacterium animalis subsp. lactis AD011."
    Kim J.F., Jeong H., Yu D.S., Choi S.-H., Hur C.-G., Park M.-S., Yoon S.H., Kim D.-W., Ji G.E., Park H.-S., Oh T.K.
    J. Bacteriol. 191:678-679(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AD011.

Entry informationi

Entry nameiDDL_BIFA0
AccessioniPrimary (citable) accession number: B8DVN7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: November 26, 2014
This is version 42 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