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Q65RY9

- DDL_MANSM

UniProt

Q65RY9 - DDL_MANSM

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Mannheimia succiniciproducens (strain MBEL55E)
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

Binds 2 magnesium or manganese ions per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi258 – 2581Magnesium or manganese 1UniRule annotation
Metal bindingi271 – 2711Magnesium or manganese 1UniRule annotation
Metal bindingi271 – 2711Magnesium or manganese 2UniRule annotation
Metal bindingi273 – 2731Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi135 – 19056ATPUniRule 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

BioCyciBMAN221988:GHGM-1714-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:MS1664
OrganismiMannheimia succiniciproducens (strain MBEL55E)
Taxonomic identifieri221988 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeBasfia
ProteomesiUP000000607: 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 – 307307D-alanine--D-alanine ligasePRO_0000177840Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi221988.MS1664.

Structurei

3D structure databases

ProteinModelPortaliQ65RY9.
SMRiQ65RY9. Positions 7-306.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini105 – 304200ATP-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.
OMAiKLAFQYD.
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. 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.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q65RY9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKPLKEQKIA VLLGGTSAER EVSLTSGDAV LTALRNQGYD AHPIDPKEYP
60 70 80 90 100
VAQLKEQGFE RAFNILHGRG GEDGVIQGVL EQIGLPYTGC GVMTSALTMD
110 120 130 140 150
KMRTKMLWKG FGLPIADMEI VTRDTVDELN PLEVVERLGL PLMVKPSREG
160 170 180 190 200
SSVGLTKVNA VEELKNAVDL ALTHDDTVLI EEWLSGIEMT VPVLDDQVLP
210 220 230 240 250
AVQIIPEGEF YDYDAKYISD NTRYICPAPM SEESLQELQK LVKRAYDVVG
260 270 280 290 300
CRGWSRIDVM TDANGNFRLV EVNTTPGMTS HSLFPKSAAT VGYSFEQLVV

KILELSA
Length:307
Mass (Da):33,760
Last modified:October 25, 2004 - v1
Checksum:i77190C9FCB85441B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE016827 Genomic DNA. Translation: AAU38271.1.
RefSeqiWP_011200832.1. NC_006300.1.
YP_088856.1. NC_006300.1.

Genome annotation databases

EnsemblBacteriaiAAU38271; AAU38271; MS1664.
GeneIDi3075094.
KEGGimsu:MS1664.
PATRICi22446603. VBIManSuc86752_1516.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE016827 Genomic DNA. Translation: AAU38271.1 .
RefSeqi WP_011200832.1. NC_006300.1.
YP_088856.1. NC_006300.1.

3D structure databases

ProteinModelPortali Q65RY9.
SMRi Q65RY9. Positions 7-306.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 221988.MS1664.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAU38271 ; AAU38271 ; MS1664 .
GeneIDi 3075094.
KEGGi msu:MS1664.
PATRICi 22446603. VBIManSuc86752_1516.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci BMAN221988:GHGM-1714-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.
PS00844. DALA_DALA_LIGASE_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The genome sequence of the capnophilic rumen bacterium Mannheimia succiniciproducens."
    Hong S.H., Kim J.S., Lee S.Y., In Y.H., Choi S.S., Rih J.-K., Kim C.H., Jeong H., Hur C.G., Kim J.J.
    Nat. Biotechnol. 22:1275-1281(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MBEL55E.

Entry informationi

Entry nameiDDL_MANSM
AccessioniPrimary (citable) accession number: Q65RY9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 7, 2006
Last sequence update: October 25, 2004
Last modified: October 29, 2014
This is version 72 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