Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Bifidobacterium longum (strain NCC 2705)
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 bindingi378 – 3781Magnesium or manganese 1UniRule annotation
Metal bindingi391 – 3911Magnesium or manganese 1UniRule annotation
Metal bindingi391 – 3911Magnesium or manganese 2UniRule annotation
Metal bindingi393 – 3931Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi237 – 29963ATPUniRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

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

BioCyciBLON206672:GI1E-1025-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
Synonyms:ddlA
Ordered Locus Names:BL0345
OrganismiBifidobacterium longum (strain NCC 2705)
Taxonomic identifieri206672 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeBifidobacterialesBifidobacteriaceaeBifidobacterium
ProteomesiUP000000439 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 428428D-alanine--D-alanine ligasePRO_0000177787Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi206672.BL0345.

Structurei

3D structure databases

ProteinModelPortaliQ8G7C4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini205 – 424220ATP-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.
OMAiIEENITG.
OrthoDBiEOG64BQ73.
PhylomeDBiQ8G7C4.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 2 hits.
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. 2 hits.
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.

Q8G7C4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRLLCAAFRA RFGPVGGAKH RLENGCSFNK RMVMAKKRVV VLYGGRADEH
60 70 80 90 100
SISCISTAGV LGAMDTERFE PIPVGITKDG KWIINGEDPR GWNLDGGELP
110 120 130 140 150
TVKITPESRP VMLDPSRGQD GFFIGEPSHI NSADSGFGTS FVSMSDPEMH
160 170 180 190 200
HVLTSLGHVD AVLPVLHGPY GEDGTVQGLL EMMGVPYVGC GVFASAACMD
210 220 230 240 250
KHYTKVVLDA AGIPTAPGVT VDARNFTAAD VLAEIEDAGL TYPLFVKPSR
260 270 280 290 300
AGSSFGVTKV EKADDRETQQ DRLAAAIATA GEHDWKVLVE QGIDGREIEC
310 320 330 340 350
AVLCPKAGDE PEASWPGEIV LDHQNDDQFY DFDSKYMDAS ASHVEVPANL
360 370 380 390 400
PVSVLEDVRD VARRAFKAVD GAGLSRVDTF VTPDGTVMVN EINTMPGFTP
410 420
ISMYPKAWDA TGVSYTELIT RLIEGVLR
Length:428
Mass (Da):46,045
Last modified:March 1, 2003 - v1
Checksum:iD501772E024C8F46
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE014295 Genomic DNA. Translation: AAN24184.1.
RefSeqiNP_695548.1. NC_004307.2.
WP_011068439.1. NC_004307.2.

Genome annotation databases

EnsemblBacteriaiAAN24184; AAN24184; BL0345.
GeneIDi1023250.
KEGGiblo:BL0345.
PATRICi21119251. VBIBifLon107831_1082.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE014295 Genomic DNA. Translation: AAN24184.1.
RefSeqiNP_695548.1. NC_004307.2.
WP_011068439.1. NC_004307.2.

3D structure databases

ProteinModelPortaliQ8G7C4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi206672.BL0345.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAN24184; AAN24184; BL0345.
GeneIDi1023250.
KEGGiblo:BL0345.
PATRICi21119251. VBIBifLon107831_1082.

Phylogenomic databases

eggNOGiCOG1181.
HOGENOMiHOG000011593.
KOiK01921.
OMAiIEENITG.
OrthoDBiEOG64BQ73.
PhylomeDBiQ8G7C4.

Enzyme and pathway databases

UniPathwayiUPA00219.
BioCyciBLON206672:GI1E-1025-MONOMER.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 2 hits.
3.40.50.20. 2 hits.
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. 2 hits.
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. "The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract."
    Schell M.A., Karmirantzou M., Snel B., Vilanova D., Berger B., Pessi G., Zwahlen M.-C., Desiere F., Bork P., Delley M., Pridmore R.D., Arigoni F.
    Proc. Natl. Acad. Sci. U.S.A. 99:14422-14427(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NCC 2705.

Entry informationi

Entry nameiDDL_BIFLO
AccessioniPrimary (citable) accession number: Q8G7C4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: March 1, 2003
Last modified: May 27, 2015
This is version 85 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.