Reviewed,
UniProtKB/Swiss-Prot Q83MF7 (DDLB_SHIFL)
Last modified
November 25, 2008.
Version 48.
History...
Clusters with 100%,
90%,
50% identity |
Documents (3) |
Third-party data |
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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 |
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| Organism | Shigella flexneri [Complete proteome] [HAMAP] | ||||
| Taxonomic identifier | 623 [NCBI] | ||||
| Taxonomic lineage | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Shigella |
Protein attributes
| Sequence length | 306 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is not processed. |
| Protein existence | Inferred from homology. |
General annotation (Comments)
| Function | Cell wall formation By similarity. |
| Catalytic activity | ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine. |
| Cofactor | Binds 2 magnesium or manganese ions per subunit By similarity. |
| Pathway | |
| Subcellular location | CytoplasmBy similarity. |
| Sequence similarities | Belongs to the D-alanine--D-alanine ligase family. Contains 1 ATP-grasp domain. |
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 | peptidoglycan biosynthetic process Inferred from electronic annotation. Source: HAMAP regulation of cell shapeInferred from electronic annotation. Source: UniProtKB-KW |
| Cellular component | cell wall Inferred from electronic annotation. Source: InterPro cytoplasmInferred from electronic annotation. Source: HAMAP |
| Molecular function | ATP binding Inferred from electronic annotation. Source: InterPro D-alanine-D-alanine ligase activityInferred from electronic annotation. Source: HAMAP magnesium ion bindingInferred from electronic annotation. Source: UniProtKB-KW manganese ion bindingInferred from electronic annotation. Source: UniProtKB-KW |
| Complete GO annotation... | |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 306 | 306 | D-alanine--D-alanine ligase B | PRO_0000177873 | |||||
Regions | |||||||||
| Domain | 101 – 303 | 203 | ATP-grasp | ||||||
| Nucleotide binding | 134 – 189 | 56 | ATP By similarity | ||||||
Sites | |||||||||
| Metal binding | 257 | 1 | Magnesium or manganese 1 By similarity | ||||||
| Metal binding | 270 | 1 | Magnesium or manganese 1 By similarity | ||||||
| Metal binding | 270 | 1 | Magnesium or manganese 2 By similarity | ||||||
| Metal binding | 272 | 1 | Magnesium or manganese 2 By similarity | ||||||
Experimental info | |||||||||
| Sequence conflict | 65 | 1 | R → P in AAP15635. Ref.2 | ||||||
Sequences
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References
| [1] | "Genome sequence of Shigella flexneri 2a: insights into pathogenicity through comparison with genomes of Escherichia coli K12 and O157." Jin Q., Yuan Z., Xu J., Wang Y., Shen Y., Lu W., Wang J., Liu H., Yang J., Yang F., Zhang X., Zhang J., Yang G., Wu H., Qu D., Dong J., Sun L., Xue Y. Yu J.Nucleic Acids Res. 30:4432-4441(2002) [PubMed: 12384590] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: 301 / Serotype 2a. |
| [2] | "Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T." Wei J., Goldberg M.B., Burland V., Venkatesan M.M., Deng W., Fournier G., Mayhew G.F., Plunkett G. III, Rose D.J., Darling A., Mau B., Perna N.T., Payne S.M., Runyen-Janecky L.J., Zhou S., Schwartz D.C., Blattner F.R. Infect. Immun. 71:2775-2786(2003) [PubMed: 12704152] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700930 / 2457T / Serotype 2a. |
Cross-references
Sequence databases | |
|---|---|
| AE005674 Genomic DNA. Translation: AAN41754.1. AE014073 Genomic DNA. Translation: AAP15635.1. | |
| RefSeq | NP_706047.1. NP_835830.1. |
3D structure databases | |
| HSSP | HSSP built from PDB template 1IOV based on UniProtKB P07862. |
| SMR | Q83MF7. Positions 1-306. |
| ModBase | Search... |
Genome annotation databases | |
| GeneID | 1024534. 1076520. |
| GenomeReviews | Gene locus S0091 in contig AE014073_GR. Gene locus SF0089 in contig AE005674_GR. |
| KEGG | sfl:SF0089. sfx:S0091. |
Organism-specific databases | |
| CMR | Search... |
Phylogenomic databases | |
| HOGENOM | Q83MF7. |
Enzyme and pathway databases | |
| BioCyc | SFLE198214:AAN41754.1-MON. |
Family and domain databases | |
| HAMAP | MF_00047. [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. [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. 1 hit. [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... |
Entry information
| Entry name | DDLB_SHIFL | ||||||||
| Accession | Primary (citable) accession number: Q83MF7 Secondary accession number(s): Q7UDS4 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes) | ||||||||
Relevant documents
| PATHWAY comments Index of metabolic and biosynthesis pathways |
| UniProtKB secondary accession numbers Index of UniProtKB secondary accession numbers |
| SIMILARITY comments Index of protein domains and families |

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