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J9YVG8

- J9YVG8_9PROT

UniProt

J9YVG8 - J9YVG8_9PROT

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
alpha proteobacterium HIMB5
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 bindingi252 – 2521Magnesium or manganese 1UniRule annotation
Metal bindingi264 – 2641Magnesium or manganese 1UniRule annotation
Metal bindingi264 – 2641Magnesium or manganese 2UniRule annotation
Metal bindingi266 – 2661Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi130 – 18354ATPUniRule 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

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
ORF Names:HIMB5_00002020Imported
Organismialpha proteobacterium HIMB5Imported
Taxonomic identifieri859653 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSAR11 cluster
ProteomesiUP000006098: 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
Domaini100 – 297198ATP-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.
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.
[Graphical view]

Sequencei

Sequence statusi: Complete.

J9YVG8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKKKILILSG GISKERSISL DTGNQVAKEL KKKYSVKICE PNNDLEKNIK
60 70 80 90 100
KFKPHKIFNA LHGQFGEDGY IQTIIENYKI PYTHSGVIAS AIAMDKDISK
110 120 130 140 150
RIFLKNKILT PKYINFTFDK NPKELTKTVE KILKFPVVVK PINEGSSVNV
160 170 180 190 200
FICTKKNFLK KVELLKSYKK IMIEEFIGGR EIQVAILGKK KLGAIELKPK
210 220 230 240 250
RKFYDYTAKY KKSAKTKHII PVQLPKKKLD LVLNISLKAH NLIGCKGVTR
260 270 280 290 300
SDFKFYNNKF YLLEINTQPG MTKLSLVPEI AAYRGISFFD LLEWMLKDAS

INR
Length:303
Mass (Da):34,751
Last modified:November 28, 2012 - v1
Checksum:i35B767FF6C9770C4
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003809 Genomic DNA. Translation: AFS46971.1.
RefSeqiWP_014952803.1. NC_018643.1.
YP_006756148.1. NC_018643.1.

Genome annotation databases

EnsemblBacteriaiAFS46971; AFS46971; HIMB5_00002020.
GeneIDi13673464.
KEGGiapm:HIMB5_00002020.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP003809 Genomic DNA. Translation: AFS46971.1 .
RefSeqi WP_014952803.1. NC_018643.1.
YP_006756148.1. NC_018643.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AFS46971 ; AFS46971 ; HIMB5_00002020 .
GeneIDi 13673464.
KEGGi apm:HIMB5_00002020.

Phylogenomic databases

KOi K01921.

Enzyme and pathway databases

UniPathwayi UPA00219 .

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.
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.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE.
    Strain: HIMB5Imported.

Entry informationi

Entry nameiJ9YVG8_9PROT
AccessioniPrimary (citable) accession number: J9YVG8
Entry historyi
Integrated into UniProtKB/TrEMBL: November 28, 2012
Last sequence update: November 28, 2012
Last modified: October 29, 2014
This is version 13 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported

External Data

Dasty 3