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P95803

- DDL_STRMU

UniProt

P95803 - DDL_STRMU

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Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

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 bindingi289 – 2891Magnesium or manganese 1UniRule annotation
Metal bindingi302 – 3021Magnesium or manganese 1UniRule annotation
Metal bindingi302 – 3021Magnesium or manganese 2UniRule annotation
Metal bindingi304 – 3041Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi163 – 21856ATPUniRule 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

BioCyciSMUT210007:GC7Z-588-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:SMU_599
OrganismiStreptococcus mutans serotype c (strain ATCC 700610 / UA159)
Taxonomic identifieri210007 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus
ProteomesiUP000002512: 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 – 349349D-alanine--D-alanine ligasePRO_0000177886Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi210007.SMU.599.

Structurei

Secondary structure

1
349
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 118
Helixi17 – 3014
Turni33 – 353
Beta strandi36 – 438
Beta strandi49 – 579
Helixi73 – 753
Helixi79 – 824
Beta strandi88 – 925
Turni96 – 983
Beta strandi99 – 1013
Helixi102 – 1098
Beta strandi114 – 1163
Helixi119 – 1268
Helixi128 – 13811
Beta strandi146 – 1505
Helixi155 – 16511
Beta strandi168 – 1747
Beta strandi184 – 1885
Helixi189 – 20214
Beta strandi204 – 2107
Beta strandi214 – 22613
Beta strandi233 – 2353
Beta strandi255 – 2584
Helixi263 – 27917
Beta strandi284 – 2929
Beta strandi298 – 3069
Helixi314 – 3218
Helixi326 – 34520

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3K3PX-ray2.23A/B1-349[»]
ProteinModelPortaliP95803.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP95803.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini133 – 335203ATP-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.
KOiK01921.
OMAiKLAFQYD.
OrthoDBiEOG64BQ73.
PhylomeDBiP95803.

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.

P95803-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSKETLVLLY GGRSAERDVS VLSAESVMRA INYDNFLVKT YFITQAGDFI
60 70 80 90 100
KTQEFDSQPS ETDKLMTNDT IIASQKIKPS DIYEEEAVVF PVLHGPMGED
110 120 130 140 150
GSIQGFLEVL KMPYVGTNIL SSSVAMDKIT TNQVLESATT IPQVAYVALI
160 170 180 190 200
EGEPLESKLA EVEEKLIYPV FVKPANMGSS VGISKAENRT DLKQAIALAL
210 220 230 240 250
KYDSRVLIEQ GVDAREIEVG ILGNTDVKTT LPGEIVKDVA FYDYEAKYID
260 270 280 290 300
NKITMAIPAE IDPVIVEKMR DYAATAFRTL GCCGLSRCDF FLTEDGKVYL
310 320 330 340
NELNTMPGFT QWSMYPLLWE NMGLSYSVLI EELVSLAKEM FDKRESHLV
Length:349
Mass (Da):38,838
Last modified:November 28, 2002 - v2
Checksum:iFFDAAD9942CAE7EF
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti132 – 1321N → K in AAB41854. 1 PublicationCurated
Sequence conflicti238 – 2381D → V in AAB41854. 1 PublicationCurated
Sequence conflicti273 – 2731A → R in AAB41854. 1 PublicationCurated

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE014133 Genomic DNA. Translation: AAN58338.1.
U69165 Genomic DNA. Translation: AAB41854.1.
RefSeqiNP_721032.1. NC_004350.2.

Genome annotation databases

EnsemblBacteriaiAAN58338; AAN58338; SMU_599.
GeneIDi1029384.
KEGGismu:SMU_599.
PATRICi19663399. VBIStrMut61772_0532.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE014133 Genomic DNA. Translation: AAN58338.1 .
U69165 Genomic DNA. Translation: AAB41854.1 .
RefSeqi NP_721032.1. NC_004350.2.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3K3P X-ray 2.23 A/B 1-349 [» ]
ProteinModelPortali P95803.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 210007.SMU.599.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAN58338 ; AAN58338 ; SMU_599 .
GeneIDi 1029384.
KEGGi smu:SMU_599.
PATRICi 19663399. VBIStrMut61772_0532.

Phylogenomic databases

eggNOGi COG1181.
KOi K01921.
OMAi KLAFQYD.
OrthoDBi EOG64BQ73.
PhylomeDBi P95803.

Enzyme and pathway databases

UniPathwayi UPA00219 .
BioCyci SMUT210007:GC7Z-588-MONOMER.

Miscellaneous databases

EvolutionaryTracei P95803.

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

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700610 / UA159.
  2. Garnier F., Gerbaud G., Courvalin P., Galimand M.
    Submitted (FEB-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 106-303.
    Strain: ATCC 25175 / DSM 20523 / JCM 5705 / NBRC 13955 / NCIMB 702062 / NCTC 10449.

Entry informationi

Entry nameiDDL_STRMU
AccessioniPrimary (citable) accession number: P95803
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 28, 2002
Last modified: October 29, 2014
This is version 110 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3