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PangenomeTIGR4
serotype 4
D39serotype 2
D39Vserotype 2
Hungary19A-6serotype 19A
EF3030serotype 19F
670-6Bserotype 6B
6A-10serotype 6A
70585serotype 5
A026serotype 19F
A66serotype 3
AP200serotype 11A
ASP0581serotype 12F
ATCC 49619serotype 19F
ATCC 700669serotype 23F
BM6001serotype 19F
BVJ1JLserotype 1
CGSP14serotype 14
G54serotype 19F
HU-OHserotype 3
Hu15serotype 19A
Hu17serotype 19A
INV104serotype 1
INV200serotype 14
JJAserotype 14
MDRSPN001serotype 19F
NCTC7465serotype 1
NCTC7466serotype 2
NU83127serotype 4
OXC141serotype 3
P1031serotype 1
R6serotype 2
SP49serotype 19A
SPN032672serotype 1
SPN034156serotype 3
SPN034183serotype 3
SPN994038serotype 3
SPN994039serotype 3
SPNA45serotype 3
ST556serotype 19F
TCH8431/19Aserotype 19A
Taiwan19F-14serotype 19F
Xen35serotype 4
gamPNI0373serotype 1
NCBI: 25-OCT-2024
⊟Summary[edit | edit source]
- organism: Streptococcus pneumoniae TCH8431/19A
- locus tag: HMPREF0837_RS04430 [old locus tag: HMPREF0837_10919 ]
- pan locus tag?: PNEUPAN001523000
- symbol: ldcB
- pan gene symbol?: dacB
- synonym:
- product: LD-carboxypeptidase LdcB/DacB
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- type: CDS
- locus tag: HMPREF0837_RS04430 [old locus tag: HMPREF0837_10919 ]
- symbol: ldcB
- product: LD-carboxypeptidase LdcB/DacB
- replicon: chromosome
- strand: +
- coordinates: 841602..842318
- length: 717
- essential: unknown
⊟Accession numbers[edit | edit source]
- Location: NC_014251 (841602..842318) NCBI
- BioCyc: HMPREF0837_RS04430 BioCyc
- MicrobesOnline:
- PneumoBrowse for strain D39V: SPV_0549 PneumoBrowse
⊟Phenotype[edit | edit source]
Share your knowledge and add information here. [edit]
⊟DNA sequence[edit | edit source]
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661ATGAAAAAAAGATATGTCATTTTATCTGGTTTACTAGCATTGACCCTTGCAGCTTGTTCG
CAAGAAAAAACCAAAGTTGAAGAAAACACTCAAAAAACGGAGCAAAGCAGTCAACCGGAA
GGAACTGTAGGTAGCAAATCTCAAGCTTCTAGTCAGAAAAAGGCAGAAGTTAGCAATAAA
GGGAGCTATTATAGTATCCAAGGGAAATACGATGAGATTATCCTAGCTAATAAACGTTAT
CCTTTGTCAAAAGATTACAATCCAGGAGAAAATCCAACAGCCAAGGCAGAGTTGCTCAAA
CTAATCGCAGCTATGCAGGCTGAGGGCTATCCAATCAGTGACCAATACAGTGGGTTTAGG
AGTTATGAAACTCAGGCTAAGCTCTACCAAGACTATGTCAATCAAGATGGTAAGGAAGCA
GCAGATCGCTACTCAGCACGCCCAGGTTACAGTGAACACCAGACGGGTCTTGCTTTTGAT
TTGATTGGGACAGATGGGGATTTAGTTACTGAAGAAAAGGCAGCCCAGTGGCTCTTGGAC
CATGCGGCTGACTATGGCTTTGTTGTTCGCTATCTTAAAGGCAAGGAAAAGGAGACTGGC
TACATGGCAGAAGAATGGCATCTCCGCTACGTTGGAAAAGAAGCCAAAGAAATTGCTGCA
AGTGGTCTCAGTTTGGAAGAGTACTATGGCTTTGAAGGCGGCGATTATGTCGATTAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: HMPREF0837_RS04430 [old locus tag: HMPREF0837_10919 ]
- symbol: LdcB
- description: LD-carboxypeptidase LdcB/DacB
- length: 238
- theoretical pI: 4.84227
- theoretical MW: 26550.2
- GRAVY: -0.75
⊟Function[edit | edit source]
- TIGRFAM: Cell envelope Other uncharacterized lipoprotein (TIGR02722; HMM-score: 16.3)
- TheSEED: see HMPREF0837_10919
- PFAM: Peptidase_MD (CL0170) VanY; D-alanyl-D-alanine carboxypeptidase (PF02557; HMM-score: 127.3)
⊟Structure, modifications & cofactors[edit | edit source]
- domains:
- modifications:
- cofactors:
- effectors:
⊟Localization[edit | edit source]
- PSORTb: Cytoplasmic
- Cytoplasmic Score: 9.67
- Cytoplasmic Membrane Score: 0.01
- Cellwall Score: 0.15
- Extracellular Score: 0.17
- Internal Helices: 0
- DeepLocPro: Cytoplasmic Membrane
- Cytoplasmic Score: 0.0048
- Cytoplasmic Membrane Score: 0.7143
- Cell wall & surface Score: 0.0356
- Extracellular Score: 0.2452
- SignalP: Signal peptide LIPO(Sec/SPII) length 18 aa
- SP(Sec/SPI): 0.000494
- TAT(Tat/SPI): 0.000047
- LIPO(Sec/SPII): 0.999328
- Cleavage Site: CS pos: 18-19. LAA-CS. Pr: 0.9998
- predicted transmembrane helices (TMHMM): 0
⊟Accession numbers[edit | edit source]
- GI:
- RefSeq: WP_000747819 NCBI
- UniProt:
⊟Protein sequence[edit | edit source]
- MKKRYVILSGLLALTLAACSQEKTKVEENTQKTEQSSQPEGTVGSKSQASSQKKAEVSNKGSYYSIQGKYDEIILANKRYPLSKDYNPGENPTAKAELLKLIAAMQAEGYPISDQYSGFRSYETQAKLYQDYVNQDGKEAADRYSARPGYSEHQTGLAFDLIGTDGDLVTEEKAAQWLLDHAADYGFVVRYLKGKEKETGYMAEEWHLRYVGKEAKEIAASGLSLEEYYGFEGGDYVD
⊟Experimental data[edit | edit source]
- protein localization:
- interaction partners:
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
⊟Regulation[edit | edit source]
- regulator:
⊟Transcription[edit | edit source]
- transcription start site:
⊟Expression data[edit | edit source]
- PneumoExpress for strain D39V: SPV_0549 PneumoExpress
⊟Biological Material[edit | edit source]
⊟Mutants[edit | edit source]
⊟Expression vector[edit | edit source]
⊟lacZ fusion[edit | edit source]
⊟GFP fusion[edit | edit source]
⊟two-hybrid system[edit | edit source]
⊟FLAG-tag construct[edit | edit source]
⊟Antibody[edit | edit source]
⊟Other Information[edit | edit source]
You can add further information about the gene and protein here. [edit]
⊟Literature[edit | edit source]
⊟References[edit | edit source]
⊟Relevant publications[edit | edit source]
Skye M Barendt, Lok-To Sham, Malcolm E Winkler
Characterization of mutants deficient in the L,D-carboxypeptidase (DacB) and WalRK (VicRK) regulon, involved in peptidoglycan maturation of Streptococcus pneumoniae serotype 2 strain D39.
J Bacteriol: 2011, 193(9);2290-300
[PubMed:21378199] [WorldCat.org] [DOI] (I p)Mohammed R Abdullah, Javier Gutiérrez-Fernández, Thomas Pribyl, Nicolas Gisch, Malek Saleh, Manfred Rohde, Lothar Petruschka, Gerhard Burchhardt, Dominik Schwudke, Juan A Hermoso, Sven Hammerschmidt
Structure of the pneumococcal l,d-carboxypeptidase DacB and pathophysiological effects of disabled cell wall hydrolases DacA and DacB.
Mol Microbiol: 2014, 93(6);1183-206
[PubMed:25060741] [WorldCat.org] [DOI] (I p)Juan Zhang, Yi-Hu Yang, Yong-Liang Jiang, Cong-Zhao Zhou, Yuxing Chen
Structural and biochemical analyses of the Streptococcus pneumonia L,D-carboxypeptidase DacB.
Acta Crystallogr D Biol Crystallogr: 2015, 71(Pt 2);283-92
[PubMed:25664738] [WorldCat.org] [DOI] (I p)