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I1YGJ2

- I1YGJ2_METFJ

UniProt

I1YGJ2 - I1YGJ2_METFJ

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Protein
D-alanine--D-alanine ligase
Gene
ddl, Q7C_866
Organism
Methylophaga frappieri (strain ATCC BAA-2434 / DSM 25690 / JAM7)
Status
Unreviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

Cell wall formation By similarity.UniRule annotationSAAS annotations

Catalytic activityi

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

Cofactori

Binds 2 magnesium or manganese ions per subunit By similarity.UniRule annotationSAAS annotations

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi259 – 2591Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi272 – 2721Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi272 – 2721Magnesium or manganese 2 By similarityUniRule annotation
Metal bindingi274 – 2741Magnesium or manganese 2 By similarityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi136 – 19156ATP By similarityUniRule annotation
Add
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
Complete GO annotation...

GO - Biological processi

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

Keywords - Molecular functioni

LigaseUniRule annotationSAAS annotationsImported

Keywords - Biological processi

Cell shape, Cell wall biogenesis/degradationUniRule annotationSAAS annotations, Peptidoglycan synthesisUniRule annotationSAAS annotations

Keywords - Ligandi

ATP-bindingUniRule annotationSAAS annotations, MagnesiumUniRule annotationSAAS annotations, ManganeseUniRule annotationSAAS annotations, Metal-bindingUniRule annotationSAAS annotations, Nucleotide-binding

Enzyme and pathway databases

BioCyciMSP754477:GLGI-863-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 ligase
D-alanylalanine synthetase
Gene namesi
Name:ddlUniRule annotation
Ordered Locus Names:Q7C_866Imported
OrganismiMethylophaga frappieri (strain ATCC BAA-2434 / DSM 25690 / JAM7)Imported
Taxonomic identifieri754477 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaThiotrichalesPiscirickettsiaceaeMethylophaga
ProteomesiUP000009145: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotationSAAS annotations

GO - Cellular componenti

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

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotations

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini110 – 305196ATP-grasp By similarityUniRule annotation
Add
BLAST

Sequence similaritiesi

Contains 1 ATP-grasp domain.UniRule annotation
Contains ATP-grasp domain.SAAS annotations

Phylogenomic databases

KOiK01921.

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. 2 hits.
[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.
[Graphical view]

Sequencei

Sequence statusi: Complete.

I1YGJ2-1 [UniParc]FASTAAdd to Basket

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MMDQITDPKA FGRVAVLMGG RSAEREISLK SGNAVLSALL AKGVEAVGID    50
VDSHIDITLR EGQFDRAFIV LHGRGGEDGE IQGLLQAMAI PFTGSGVTGA 100
MLSMNKRISK LIWQQQALST PKFRLVNAET DPQELVIALG LPLVIKPVHE 150
GSSIGMSKVT DGEAIAAAIR LALQFDQDVI AEQWINGAEY TASILAGNAL 200
PVIRLKTPRE FYDFEAKYHA NNTEYLCPCG LTEEQEKRCQ ALALDAFNAL 250
QMKGWGRVDV MADQQGNFYL LEANGVPGMT DHSLVPMAAR ETGLDFQQLC 300
WRILETSLEE KN 312
Length:312
Mass (Da):34,034
Last modified:July 11, 2012 - v1
Checksum:i8EF104D6912C490A
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003380 Genomic DNA. Translation: AFJ02035.1.
RefSeqiWP_014703456.1. NC_017856.1.
YP_006292722.1. NC_017856.1.

Genome annotation databases

EnsemblBacteriaiAFJ02035; AFJ02035; Q7C_866.
GeneIDi12843204.
KEGGimec:Q7C_866.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003380 Genomic DNA. Translation: AFJ02035.1 .
RefSeqi WP_014703456.1. NC_017856.1.
YP_006292722.1. NC_017856.1.

3D structure databases

ModBasei Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AFJ02035 ; AFJ02035 ; Q7C_866 .
GeneIDi 12843204.
KEGGi mec:Q7C_866.

Phylogenomic databases

KOi K01921.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci MSP754477:GLGI-863-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. 2 hits.
[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.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete genome sequences of Methylophaga sp. strain JAM1 and Methylophaga sp. strain JAM7."
    Villeneuve C., Martineau C., Mauffrey F., Villemur R.
    J. Bacteriol. 194:4126-4127(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: JAM7Imported.

Entry informationi

Entry nameiI1YGJ2_METFJ
AccessioniPrimary (citable) accession number: I1YGJ2
Entry historyi
Integrated into UniProtKB/TrEMBL: July 11, 2012
Last sequence update: July 11, 2012
Last modified: September 3, 2014
This is version 16 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome

External Data

Dasty 3

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