D-alanine--D-alanine ligase B - Pseudomonas aeruginosa

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Reviewed, UniProtKB/Swiss-Prot Q9LCT6 (DDLB_PSEAE)

Last modified February 9, 2010. Version 56. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
    D-alanine--D-alanine ligase B
    EC=6.3.2.4
Alternative name(s):
    D-alanylalanine synthetase B
    D-Ala-D-Ala ligase B

Gene names

Name:	ddlB
Ordered Locus Names:	PA4410

Organism

Pseudomonas aeruginosa [Complete proteome] [HAMAP]

Taxonomic identifier

287 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Pseudomonadales › Pseudomonadaceae › Pseudomonas

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Protein attributes

Sequence length	319 AA.
Sequence status	Complete.
Protein existence	Inferred from homology.

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General annotation (Comments)

Function	Cell wall formation By similarity. HAMAP MF_00047
Catalytic activity	ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. HAMAP MF_00047
Cofactor	Binds 2 magnesium or manganese ions per subunit By similarity. HAMAP MF_00047
Pathway	Cell wall biogenesis; peptidoglycan biosynthesis. HAMAP MF_00047
Subcellular location	Cytoplasm By similarity HAMAP MF_00047.
Sequence similarities	Belongs to the D-alanine--D-alanine ligase family. Contains 1 ATP-grasp domain.

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Ontologies

Keywords
Biological process	Cell shape Cell wall biogenesis/degradation Peptidoglycan synthesis
Cellular component	Cytoplasm
Ligand	ATP-binding Magnesium Manganese Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	cellular cell wall organization Inferred from electronic annotation. Source: UniProtKB-KW peptidoglycan biosynthetic process Inferred from electronic annotation. Source: HAMAP regulation of cell shape Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cell wall Inferred from electronic annotation. Source: InterPro cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW D-alanine-D-alanine ligase activity Inferred from electronic annotation. Source: HAMAP magnesium ion binding Inferred from electronic annotation. Source: UniProtKB-KW manganese ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 319

319

D-alanine--D-alanine ligase B HAMAP MF_00047

PRO_0000177856

Regions

Domain

117 – 312

196

ATP-grasp

Nucleotide binding

143 – 198

ATP By similarity

Sites

Metal binding

266

Magnesium or manganese 1 By similarity

Metal binding

279

Magnesium or manganese 1 By similarity

Metal binding

279

Magnesium or manganese 2 By similarity

Metal binding

281

Magnesium or manganese 2 By similarity

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Sequences

Sequence

Length

Mass (Da)

Tools

Q9LCT6-1 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: 9470EF555A745419
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FASTA

319

34,363

        10         20         30         40         50         60 
MNLCLDSLLN GTQDPKAFGR VAVLFGGKSA EREVSLKSGA MVLQSLLAAG VDAFGIDVGE 

        70         80         90        100        110        120 
DLLQRLVEEK IDRAFIILHG RGGEDGSMQG LLECAGIPYT GSGVLASALA MDKLRTKRVW 

       130        140        150        160        170        180 
LSLGLPTPDY AVLASEDDCR EAAQRLGFPL IVKPAHEGSS IGMAKVGGLD ELIAAWREAA 

       190        200        210        220        230        240 
RYDSQVLVEQ WISGPEFTVA TLRGQVLPAI RLGTPHTFYD YDAKYLASDT RYQVPCGLDE 

       250        260        270        280        290        300 
AKERELKELT ARACDALGIQ GWGRADVMQD AEGRFWLLEV NTAPGMTDHS LVPMAARAAG 

       310 
LDFQQLVLAI LADSREARG

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Physical mapping of 38 loci including aimE, ampC, ampR, arcA, aroK, catR, cypH, dapB, envA, envC, ftsA, ftsZ, groEL, murE, opdE, oprD, oprF, oprH, oprI, oprK, oprP, pbpB, pbpC, pheS, phoA, phoB, phoS, ponA, pyoS1, qin, rpoB, rpoH, sodB, soxR, sucC." Levesque R.C., Liao X., Lightfoot J., Charlebois I., Ouellet C., Morency M., Dewar K., Siehnel R., Lam J., Hancock R.E. Submitted (JAN-2000) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228.
[2]	"Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen." Stover C.K., Pham X.-Q.T., Erwin A.L., Mizoguchi S.D., Warrener P., Hickey M.J., Brinkman F.S.L., Hufnagle W.O., Kowalik D.J., Lagrou M., Garber R.L., Goltry L., Tolentino E., Westbrock-Wadman S., Yuan Y., Brody L.L., Coulter S.N., Folger K.R. Olson M.V. Nature 406:959-964(2000) [PubMed: 10984043] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228.

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Cross-references

Sequence databases
EMBL GenBank DDBJ	U19797 Genomic DNA. Translation: AAF26456.1. AE004091 Genomic DNA. Translation: AAG07798.1.
PIR	C83094.
RefSeq	NP_253100.1.
3D structure databases
SMR	Q9LCT6. Positions 19-312.
ModBase	Search...
Genome annotation databases
GeneID	881282.
GenomeReviews	Gene locus PA4410 in contig AE004091_GR.
KEGG	pae:PA4410.
NMPDR	fig\|208964.1.peg.4410.
Organism-specific databases
PseudoCAP	PA4410.
CMR	Search...
Phylogenomic databases
HOGENOM	HBG427092.
OMA	RAFIILH.
Enzyme and pathway databases
BioCyc	PAER208964:PA4410-MONOMER.
BRENDA	6.3.2.4. 354.
Family and domain databases
HAMAP	MF_00047. Dala_Dala_lig. [Tree]
InterPro	IPR011761. ATP-grasp. 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. IPR013817. Pre-ATP_grasp. IPR016185. PreATP-grasp-like. [Graphical view]
Gene3D	G3DSA:3.30.470.20. ATP_grasp_subdomain_2. 1 hit. G3DSA:3.40.50.20. Pre-ATP_grasp. 1 hit.
Pfam	PF07478. Dala_Dala_lig_C. 1 hit. PF01820. Dala_Dala_lig_N. 2 hits. [Graphical view]
TIGRFAMs	TIGR01205. D_ala_D_alaTIGR. 1 hit.
PROSITE	PS50975. ATP_GRASP. 1 hit. PS00843. DALA_DALA_LIGASE_1. 1 hit. PS00844. DALA_DALA_LIGASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

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Entry information

Entry name

DDLB_PSEAE

Accession

Primary (citable) accession number: Q9LCT6

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	October 1, 2000
Last modified:	February 9, 2010
This is version 56 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents