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I1YGJ2

- I1YGJ2_METFJ

UniProt

I1YGJ2 - I1YGJ2_METFJ

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Protein

D-alanine--D-alanine ligase

Gene

ddl

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.UniRule annotationSAAS annotation

Catalytic activityi

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

Cofactori

Binds 2 magnesium or manganese ions per subunit.UniRule annotationSAAS annotation

Pathwayi

Sites

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi136 – 19156ATPUniRule 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

LigaseUniRule annotationSAAS annotation

Keywords - Biological processi

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

Keywords - Ligandi

ATP-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotationSAAS annotation, ManganeseUniRule annotationSAAS annotation, Metal-bindingUniRule annotationSAAS annotation, 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 ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
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 UniRule annotationSAAS annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini110 – 305196ATP-graspUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the D-alanine--D-alanine ligase family.UniRule annotation
Contains 1 ATP-grasp domain.UniRule annotation
Contains ATP-grasp domain.SAAS annotation

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

« Hide

        10         20         30         40         50
MMDQITDPKA FGRVAVLMGG RSAEREISLK SGNAVLSALL AKGVEAVGID
60 70 80 90 100
VDSHIDITLR EGQFDRAFIV LHGRGGEDGE IQGLLQAMAI PFTGSGVTGA
110 120 130 140 150
MLSMNKRISK LIWQQQALST PKFRLVNAET DPQELVIALG LPLVIKPVHE
160 170 180 190 200
GSSIGMSKVT DGEAIAAAIR LALQFDQDVI AEQWINGAEY TASILAGNAL
210 220 230 240 250
PVIRLKTPRE FYDFEAKYHA NNTEYLCPCG LTEEQEKRCQ ALALDAFNAL
260 270 280 290 300
QMKGWGRVDV MADQQGNFYL LEANGVPGMT DHSLVPMAAR ETGLDFQQLC
310
WRILETSLEE KN
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...
MobiDBi 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: October 29, 2014
This is version 18 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

External Data

Dasty 3