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Protein

D-alanine--D-alanine ligase

Gene

ddlA

Organism
Midichloria mitochondrii (strain IricVA)
Status
Unreviewed-Annotation score: Annotation score: 4 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

Protein has several cofactor binding sites:
  • Mg2+UniRule annotation, Mn2+UniRule annotationNote: Binds 2 magnesium or manganese ions per subunit.UniRule annotation
  • Mg2+SAAS annotation, Mn2+SAAS annotationNote: Binds 2 magnesium or manganese ions per subunit.SAAS annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi252 – 2521Magnesium or manganese 1UniRule annotation
Metal bindingi268 – 2681Magnesium or manganese 1UniRule annotation
Metal bindingi268 – 2681Magnesium or manganese 2UniRule annotation
Metal bindingi270 – 2701Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi130 – 18455ATPUniRule 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 cycle Source: UniProtKB-KW
  2. cell division Source: UniProtKB-KW
  3. cell wall organization Source: UniProtKB-KW
  4. peptidoglycan biosynthetic process Source: UniProtKB-HAMAP
  5. regulation of cell shape Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

LigaseUniRule annotationSAAS annotation

Keywords - Biological processi

Cell cycle, Cell divisionSAAS annotation, 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

BioCyciMMIT696127:GI3H-1205-MONOMER.
UniPathwayiUPA00219.
UPA00219.

Names & Taxonomyi

Protein namesi
Recommended name:
D-alanine--D-alanine ligaseUniRule annotationSAAS annotation (EC:6.3.2.4UniRule annotationSAAS annotation)
Alternative name(s):
D-Ala-D-Ala ligaseUniRule annotation
D-alanylalanine synthetaseUniRule annotation
Gene namesi
Name:ddlAImported
Synonyms:ddlUniRule annotation
Ordered Locus Names:midi_01206Imported
OrganismiMidichloria mitochondrii (strain IricVA)Imported
Taxonomic identifieri696127 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesCandidatus MidichloriaceaeCandidatus Midichloria
ProteomesiUP000006639: Chromosome

Subcellular locationi

Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. integral component of membrane Source: UniProtKB-KW
  3. plasma membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cell membraneSAAS annotation, CytoplasmUniRule annotationSAAS annotation, Membrane

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini101 – 301201ATP-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

Keywords - Domaini

Transmembrane, Transmembrane helixSAAS 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.
IPR005548. Cell_div_FtsQ/DivIB.
IPR005905. D_ala_D_ala.
IPR011095. Dala_Dala_lig_C.
IPR011127. Dala_Dala_lig_N.
IPR013685. POTRA_FtsQ_type.
IPR016185. PreATP-grasp_dom.
[Graphical view]
PANTHERiPTHR23132. PTHR23132. 1 hit.
PfamiPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 2 hits.
PF03799. FtsQ. 1 hit.
PF08478. POTRA_1. 1 hit.
[Graphical view]
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

F7XUC3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNKHIVLLVG GVSREREVSQ ISGESVRNAL LSLGYRVTVV DPSENLASEL
60 70 80 90 100
IKLRPDIVFN CLHGTFGEGG SIPGLLELLR IPYTHSGVTA SAIAMDKILT
110 120 130 140 150
KKMAQTCDIN TPKYVKIEKS ALFTMLEKGE DPMPKPYVIK AVQQGSSIGI
160 170 180 190 200
YLVIDENSDK PKKAEWTFGE QILVEEYIPG QELSVAVLND KALGVLELRP
210 220 230 240 250
KTNFYDYTAK YSDGVTEHVH PAEIPQEVYL EAMKRAEEMH KALGCRTVSR
260 270 280 290 300
SDFRYNNIGS ADGLFFLEIN THPGFTNLSI VPDIASRRGI SFEQIIEQLL
310 320 330 340 350
KDAKMRNNAV KIAKYTYLDT DVHYGKQISS LLQPAREKPF KKIIRVYILF
360 370 380 390 400
LLGVAAIFYI LTKLCTNEVD QFVDKLINKT VISELNICGN IQVSKEEIIN
410 420 430 440 450
TLDLSLPLEV SYINASHIKE ELLKNPLIKD VEVKINLPNI LSLLVTERQP
460 470 480 490 500
FALWFDQKQF HLIDEEGFIV KACVEFQEKE NKYIIAAGTD SNNQLQNLLD
510 520 530 540 550
ELKGYSISKK LFAVQLISNR RWNILLKNGL IVKLPENNVK EALVALDLVL
560 570
ENYSPSKPFN IIDLRLAPGK VYAVF
Length:575
Mass (Da):64,744
Last modified:September 21, 2011 - v1
Checksum:i8635E4385156424D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002130 Genomic DNA. Translation: AEI89482.1.
RefSeqiYP_004680168.1. NC_015722.1.

Genome annotation databases

EnsemblBacteriaiAEI89482; AEI89482; midi_01206.
GeneIDi10914928.
KEGGimmn:midi_01206.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002130 Genomic DNA. Translation: AEI89482.1.
RefSeqiYP_004680168.1. NC_015722.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAEI89482; AEI89482; midi_01206.
GeneIDi10914928.
KEGGimmn:midi_01206.

Phylogenomic databases

KOiK01921.

Enzyme and pathway databases

UniPathwayiUPA00219.
UPA00219.
BioCyciMMIT696127:GI3H-1205-MONOMER.

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.
IPR005548. Cell_div_FtsQ/DivIB.
IPR005905. D_ala_D_ala.
IPR011095. Dala_Dala_lig_C.
IPR011127. Dala_Dala_lig_N.
IPR013685. POTRA_FtsQ_type.
IPR016185. PreATP-grasp_dom.
[Graphical view]
PANTHERiPTHR23132. PTHR23132. 1 hit.
PfamiPF07478. Dala_Dala_lig_C. 1 hit.
PF01820. Dala_Dala_lig_N. 2 hits.
PF03799. FtsQ. 1 hit.
PF08478. POTRA_1. 1 hit.
[Graphical view]
SUPFAMiSSF52440. SSF52440. 1 hit.
TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Phylogenomic evidence for the presence of a flagellum and cbb3 oxidase in the free-living mitochondrial ancestor."
    Sassera D., Lo N., Epis S., D'Auria G., Montagna M., Comandatore F., Horner D., Pereto J., Luciano A.M., Franciosi F., Ferri E., Crotti E., Bazzocchi C., Daffonchio D., Sacchi L., Moya A., Latorre A., Bandi C.
    Mol. Biol. Evol. 28:3285-3296(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: IricVAImported.

Entry informationi

Entry nameiF7XUC3_MIDMI
AccessioniPrimary (citable) accession number: F7XUC3
Entry historyi
Integrated into UniProtKB/TrEMBL: September 21, 2011
Last sequence update: September 21, 2011
Last modified: February 4, 2015
This is version 28 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.