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A6VYJ6

- DDL_MARMS

UniProt

A6VYJ6 - DDL_MARMS

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Marinomonas sp. (strain MWYL1)
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

Mg2+By similarity, Mn2+By similarityNote: Binds 2 magnesium or manganese ions per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi262 – 2621Magnesium or manganese 1UniRule annotation
Metal bindingi275 – 2751Magnesium or manganese 1UniRule annotation
Metal bindingi275 – 2751Magnesium or manganese 2UniRule annotation
Metal bindingi277 – 2771Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi137 – 19256ATPUniRule 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

BioCyciMSP400668:GHKD-2672-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:Mmwyl1_2612
OrganismiMarinomonas sp. (strain MWYL1)
Taxonomic identifieri400668 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaOceanospirillalesMarinomonas
ProteomesiUP000001113: 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 – 317317D-alanine--D-alanine ligasePRO_0000341130Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi400668.Mmwyl1_2612.

Structurei

3D structure databases

ProteinModelPortaliA6VYJ6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini111 – 308198ATP-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.
HOGENOMiHOG000011592.
KOiK01921.
OMAiANDTQYR.
OrthoDBiEOG6ND0KB.

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.

A6VYJ6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSKTLKESVI AVIYGGRSAE REVSLQSGPL VAEGLRAKGY QVVELDLYGS
60 70 80 90 100
NAALDPIVQL QSIEFDLAFI ALHGGEGEDG RVQALLEMFG KPYTGSSPLA
110 120 130 140 150
CGLAMDKVLT KRFWNGIGIP TPAYLSFVDH ANADLIEEQM SYPVIVKPSR
160 170 180 190 200
EGSTIGINKA MNRAELDDAL IKALEYDSDI LVEEFIDGPE FTVTVIDDVA
210 220 230 240 250
YPPIGLKPAP DHKLYDYEAK YIADDTEYLL PCGLDEDDEN ELQMLALDAY
260 270 280 290 300
RSLGCFGWGR VDVMRDQAGV FWVLEVNTAP GMTSHSLVPM AAKYVGIDYA
310
SLVEKIAQNA WDKVGRN
Length:317
Mass (Da):34,724
Last modified:August 21, 2007 - v1
Checksum:iBA3C3B66FD39754E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000749 Genomic DNA. Translation: ABR71525.1.
RefSeqiWP_012070301.1. NC_009654.1.
YP_001341460.1. NC_009654.1.

Genome annotation databases

EnsemblBacteriaiABR71525; ABR71525; Mmwyl1_2612.
GeneIDi5365595.
KEGGimmw:Mmwyl1_2612.
PATRICi22468689. VBIMarSp124341_2697.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000749 Genomic DNA. Translation: ABR71525.1 .
RefSeqi WP_012070301.1. NC_009654.1.
YP_001341460.1. NC_009654.1.

3D structure databases

ProteinModelPortali A6VYJ6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 400668.Mmwyl1_2612.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABR71525 ; ABR71525 ; Mmwyl1_2612 .
GeneIDi 5365595.
KEGGi mmw:Mmwyl1_2612.
PATRICi 22468689. VBIMarSp124341_2697.

Phylogenomic databases

eggNOGi COG1181.
HOGENOMi HOG000011592.
KOi K01921.
OMAi ANDTQYR.
OrthoDBi EOG6ND0KB.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci MSP400668:GHKD-2672-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MWYL1.

Entry informationi

Entry nameiDDL_MARMS
AccessioniPrimary (citable) accession number: A6VYJ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: August 21, 2007
Last modified: November 26, 2014
This is version 55 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