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B2S3Q9

- DDL_TREPS

UniProt

B2S3Q9 - DDL_TREPS

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Treponema pallidum subsp. pallidum (strain SS14)
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 bindingi301 – 3011Magnesium or manganese 1UniRule annotation
Metal bindingi314 – 3141Magnesium or manganese 1UniRule annotation
Metal bindingi314 – 3141Magnesium or manganese 2UniRule annotation
Metal bindingi316 – 3161Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi174 – 22956ATPUniRule 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

BioCyciTPAL455434:GJ9E-707-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:TPASS_0670
OrganismiTreponema pallidum subsp. pallidum (strain SS14)
Taxonomic identifieri455434 [NCBI]
Taxonomic lineageiBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema
ProteomesiUP000001202: 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 – 396396D-alanine--D-alanine ligasePRO_1000091213Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi455434.TPASS_0670.

Structurei

3D structure databases

ProteinModelPortaliB2S3Q9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini141 – 347207ATP-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.
HOGENOMiHOG000011593.
KOiK01921.
OMAiQIDVIFP.
OrthoDBiEOG64BQ73.

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.

B2S3Q9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVHVTLLYGG RSAEHDVSVR SARFVARTLC LQHTVMLIGI TRRGVWYAQP
60 70 80 90 100
ACALEQLCTG TVALSIQEDE KRRVCLVPGG GTAGAFVIAG MPCVTDVVFP
110 120 130 140 150
VLHGSYGEDG TVQGLLEMLQ VPYVGCGVCA SALAMDKVKA KMLWQAAGLP
160 170 180 190 200
VLPFVFFRKD AWRMHMQEFV AQLETRLGYP LFVKPAQAGS SVGASAVQTR
210 220 230 240 250
APLIPAIEAA FQWDEVVLVE RYVRAREIEC ALSGNGPYTV HGAGEVIAQG
260 270 280 290 300
AFYDYEEKYA DASVARVLVT APLETAQYEQ ITTLALRAYE ALGLTGLARV
310 320 330 340 350
DFFLLETGEV YVNEVNTMPG FTSISLFPQI CQAAGVAPQD LMAQLLSCAR
360 370 380 390
ERFAARAALS TDLHAHVCAP SVTAAHDPDA QGDDWDQRDS NPLPTA
Length:396
Mass (Da):42,728
Last modified:July 1, 2008 - v1
Checksum:iFB5829335B6111A5
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000805 Genomic DNA. Translation: ACD71088.1.
RefSeqiYP_001933667.1. NC_010741.1.
YP_008119401.1. NC_021508.1.

Genome annotation databases

EnsemblBacteriaiACD71088; ACD71088; TPASS_0670.
GeneIDi15843534.
6333185.
KEGGitpp:TPASS_0670.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000805 Genomic DNA. Translation: ACD71088.1 .
RefSeqi YP_001933667.1. NC_010741.1.
YP_008119401.1. NC_021508.1.

3D structure databases

ProteinModelPortali B2S3Q9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 455434.TPASS_0670.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACD71088 ; ACD71088 ; TPASS_0670 .
GeneIDi 15843534.
6333185.
KEGGi tpp:TPASS_0670.

Phylogenomic databases

eggNOGi COG1181.
HOGENOMi HOG000011593.
KOi K01921.
OMAi QIDVIFP.
OrthoDBi EOG64BQ73.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci TPAL455434:GJ9E-707-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. "Complete genome sequence of Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays."
    Matejkova P., Strouhal M., Smajs D., Norris S.J., Palzkill T., Petrosino J.F., Sodergren E., Norton J.E., Singh J., Richmond T.A., Molla M.N., Albert T.J., Weinstock G.M.
    BMC Microbiol. 8:76-76(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: SS14.

Entry informationi

Entry nameiDDL_TREPS
AccessioniPrimary (citable) accession number: B2S3Q9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: July 1, 2008
Last modified: October 29, 2014
This is version 46 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

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3