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B2GAV5

- DDL_LACF3

UniProt

B2GAV5 - DDL_LACF3

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Lactobacillus fermentum (strain NBRC 3956 / LMG 18251)
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

Binds 2 magnesium or manganese ions per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi301 – 3011Magnesium or manganese 1UniRule annotation
Metal bindingi314 – 3141Magnesium or manganese 1UniRule annotation
Metal bindingi314 – 3141Magnesium or manganese 2UniRule annotation
Metal bindingi316 – 3161Magnesium 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

BioCyciLFER334390:GJ2S-475-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:LAF_0451
OrganismiLactobacillus fermentum (strain NBRC 3956 / LMG 18251)
Taxonomic identifieri334390 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
ProteomesiUP000001697: 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 – 377377D-alanine--D-alanine ligasePRO_1000091190Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi334390.LAF_0451.

Structurei

3D structure databases

ProteinModelPortaliB2GAV5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini141 – 347207ATP-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.
OMAiKLAFQYD.
OrthoDBiEOG64BQ73.

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.
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.

B2GAV5 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTEKKLHVAL LFGGNSSEHD VSKRSAHNIY DGMDKDKYDV SIFMFTKDGI
60 70 80 90 100
LLDNEASQRI FDGEPEDQVV QEAYQKMDLD APLAPIAALS TVKEIDFFYP
110 120 130 140 150
VIHGNLGEDG TVQGLFRLLK KPYIGSGIAS SAMSFDKDLT KRILNQAGIR
160 170 180 190 200
NTKYLLVTPQ NKDQYSWSRI KEELGDLVFV KPAKQGSSVG IHKVDTEEEY
210 220 230 240 250
ETAMKDAFTY DYKVLVEAGI KNPREIEISI LGNENPIASK LGGIRVPEGD
260 270 280 290 300
EFYDYENKFV DASGVVFDLP VIVDDDLAKE ITDMALKAYE ALGMKGMARI
310 320 330 340 350
DFLVDEDGVP YLGEPNTLPG FTNISLYPQM WNISGISYSE LIDRLIQLGI
360 370
EEFEYEGQLR YDFKALGVEK VGEKRYN
Length:377
Mass (Da):42,345
Last modified:June 10, 2008 - v1
Checksum:i426A4E0283EBC16B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP008937 Genomic DNA. Translation: BAG26787.1.
RefSeqiWP_012390927.1. NC_010610.1.
YP_001843267.1. NC_010610.1.

Genome annotation databases

EnsemblBacteriaiBAG26787; BAG26787; LAF_0451.
GeneIDi6232751.
KEGGilfe:LAF_0451.
PATRICi22224960. VBILacFer15497_0489.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP008937 Genomic DNA. Translation: BAG26787.1 .
RefSeqi WP_012390927.1. NC_010610.1.
YP_001843267.1. NC_010610.1.

3D structure databases

ProteinModelPortali B2GAV5.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 334390.LAF_0451.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAG26787 ; BAG26787 ; LAF_0451 .
GeneIDi 6232751.
KEGGi lfe:LAF_0451.
PATRICi 22224960. VBILacFer15497_0489.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci LFER334390:GJ2S-475-MONOMER.

Family and domain databases

Gene3Di 3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
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. "Comparative genome analysis of Lactobacillus reuteri and Lactobacillus fermentum reveal a genomic island for reuterin and cobalamin production."
    Morita H., Toh H., Fukuda S., Horikawa H., Oshima K., Suzuki T., Murakami M., Hisamatsu S., Kato Y., Takizawa T., Fukuoka H., Yoshimura T., Itoh K., O'Sullivan D.J., McKay L.L., Ohno H., Kikuchi J., Masaoka T., Hattori M.
    DNA Res. 15:151-161(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NBRC 3956 / LMG 18251.

Entry informationi

Entry nameiDDL_LACF3
AccessioniPrimary (citable) accession number: B2GAV5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: June 10, 2008
Last modified: October 29, 2014
This is version 46 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