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F6IJ61

- F6IJ61_9SPHN

UniProt

F6IJ61 - F6IJ61_9SPHN

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Protein
D-alanine--D-alanine ligase
Gene
ddl, PP1Y_AT7490
Organism
Novosphingobium sp. PP1Y
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 bindingi276 – 2761Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi292 – 2921Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi292 – 2921Magnesium or manganese 2 By similarityUniRule annotation
Metal bindingi294 – 2941Magnesium or manganese 2 By similarityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi152 – 20857ATP 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

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

BioCyciNSP702113:GJD2-718-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
ORF Names:PP1Y_AT7490Imported
OrganismiNovosphingobium sp. PP1YImported
Taxonomic identifieri702113 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSphingomonadalesSphingomonadaceaeNovosphingobium
ProteomesiUP000009242: 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
Domaini125 – 325201ATP-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. 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.

F6IJ61-1 [UniParc]FASTAAdd to Basket

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MGNPARRHAC RRAQHTASRY TVSLPKLHVA VLMGGWSHER SVSLMSGEGV    50
AKALESKGHK VTRIDMDRNV ALRLSEAAPD VVFNALHGAP GEDGTVQGMM 100
DLMGLTYTHS GLATSVIAID KELTKQALVP HGIPMPGGRI VASEDLYAGD 150
PLPRPYVLKP VNEGSSVGVA IVMDASNYGN PIRRDAAGPW QEFDHLLAEP 200
YIRGRELTTA VIGDRALLVT ELKPKSGFYD FDSKYTDGLT EHVCPAEIPD 250
EIAQACKDLA LRAHRLLGCK GTSRSDFRWD DTQGVEGLFL LETNTQPGMT 300
PLSLVPEQAR ACGMEYADLV EAIIAEALED ARSKQAAGAV KGAE 344
Length:344
Mass (Da):37,049
Last modified:July 27, 2011 - v1
Checksum:i10E1047439B4C474
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
FR856862 Genomic DNA. Translation: CCA91687.1.
RefSeqiWP_013832104.1. NC_015580.1.
YP_004533505.1. NC_015580.1.

Genome annotation databases

EnsemblBacteriaiCCA91687; CCA91687; PP1Y_AT7490.
GeneIDi10717485.
KEGGinpp:PP1Y_AT7490.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
FR856862 Genomic DNA. Translation: CCA91687.1 .
RefSeqi WP_013832104.1. NC_015580.1.
YP_004533505.1. NC_015580.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CCA91687 ; CCA91687 ; PP1Y_AT7490 .
GeneIDi 10717485.
KEGGi npp:PP1Y_AT7490.

Phylogenomic databases

KOi K01921.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci NSP702113:GJD2-718-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. "De novo sequencing and assembly of the whole genome of Novosphingobium sp. strain PP1Y."
    D'Argenio V., Petrillo M., Cantiello P., Naso B., Cozzuto L., Notomista E., Paolella G., Di Donato A., Salvatore F.
    J. Bacteriol. 193:4296-4296(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiF6IJ61_9SPHN
AccessioniPrimary (citable) accession number: F6IJ61
Entry historyi
Integrated into UniProtKB/TrEMBL: July 27, 2011
Last sequence update: July 27, 2011
Last modified: September 3, 2014
This is version 20 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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