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PangenomeTIGR4
serotype 4
D39
serotype 2
D39V
serotype 2
Hungary19A-6
serotype 19A
EF3030
serotype 19F
670-6B
serotype 6B
6A-10
serotype 6A
70585
serotype 5
A026
serotype 19F
A66
serotype 3
AP200
serotype 11A
ASP0581
serotype 12F
ATCC 49619
serotype 19F
ATCC 700669
serotype 23F
BM6001
serotype 19F
BVJ1JL
serotype 1
CGSP14
serotype 14
G54
serotype 19F
HU-OH
serotype 3
Hu15
serotype 19A
Hu17
serotype 19A
INV104
serotype 1
INV200
serotype 14
JJA
serotype 14
MDRSPN001
serotype 19F
NCTC7465
serotype 1
NCTC7466
serotype 2
NU83127
serotype 4
OXC141
serotype 3
P1031
serotype 1
R6
serotype 2
SP49
serotype 19A
SPN032672
serotype 1
SPN034156
serotype 3
SPN034183
serotype 3
SPN994038
serotype 3
SPN994039
serotype 3
SPNA45
serotype 3
ST556
serotype 19F
TCH8431/19A
serotype 19A
Taiwan19F-14
serotype 19F
Xen35
serotype 4
gamPNI0373
serotype 1

NCBI: 16-DEC-2024

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae CGSP14
  • locus tag: SPCG_RS03095 [old locus tag: SPCG_0590 ]
  • 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: SPCG_RS03095 [old locus tag: SPCG_0590 ]
  • symbol: ldcB
  • product: LD-carboxypeptidase LdcB/DacB
  • replicon: chromosome
  • strand: +
  • coordinates: 586071..586787
  • length: 717
  • essential: unknown

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    ATGAAGAAAAGATACCTAGTCTTGACAGCTTTGCTAGCCTTGAGTCTAGCAGCTTGTTCA
    CAAGAAAAAACAAAAAATGAAGATGGAGAAACTAAGACAGAACAGACAGCCAAAGCTGAT
    GGAACAGTCGGTAGTAAGTCTCAAGGAGCTGCCCAGAAGAAAGCAGAAGTGGTCAATAAA
    GGTGATTACTACAGCATTCAAGGGAAATACGATGAAATCATCGTAGCCAACAAACACTAT
    CCATTGTCTAAAGACTATAATCCAGGGGAAAATCCAACAGCCAAGGCAGAGTTGGTCAAA
    CTCATCAAAGCGATGCAAGAGGCAGGTTTCCCTATTAGTGATCATTACAGTGGTTTTAGA
    AGTTATGAAACTCAGACCAAGCTCTATCAAGATTATGTCAACCAAGATGGAAAGGCAGCA
    GCTGACCGTTACTCTGCCCGTCCTGGCTATAGCGAACACCAGACAGGCTTGGCCTTTGAT
    GTGATTGGGACTGATGGTGATTTGGTGACAGAAGAAAAAGCAGCCCAATGGCTCTTGGAT
    CATGCAGCTGATTATGGCTTTGTTGTCCGTTATCTCAAAGGCAAGGAAAAGGAAACAGGC
    TATATGGCTGAAGAATGGCACCTGCGTTATGTAGGAAAAGAAGCTAAAGAAATTGCTGCA
    AGTGGTCTCAGTTTGGAAGAATACTATGGCTTTGAAGGCGGAGACTACGTCGATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    717

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SPCG_RS03095 [old locus tag: SPCG_0590 ]
  • symbol: LdcB
  • description: LD-carboxypeptidase LdcB/DacB
  • length: 238
  • theoretical pI: 5.06929
  • theoretical MW: 26422.2
  • GRAVY: -0.7

⊟Function[edit | edit source]

  • TIGRFAM:
    Cell structure Cell envelope Other uncharacterized lipoprotein (TIGR02722; HMM-score: 18.7)
    and 2 more
    Cellular processes Cellular processes Pathogenesis type VI secretion lipoprotein, VC_A0113 family (TIGR03352; HMM-score: 11.4)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VI secretion lipoprotein, VC_A0113 family (TIGR03352; HMM-score: 11.4)
  • TheSEED: see SPCG_0590
  • PFAM:
    Peptidase_MD (CL0170) VanY; D-alanyl-D-alanine carboxypeptidase (PF02557; HMM-score: 128.4)
    and 4 more
    no clan defined DUF6491; Family of unknown function (DUF6491) (PF20101; HMM-score: 13.9)
    Myco_19_kDa; Mycobacterium 19 kDa lipoprotein antigen (PF05481; HMM-score: 13.8)
    Peptidase_MD (CL0170) Peptidase_M15_4; D-alanyl-D-alanine carboxypeptidase (PF13539; HMM-score: 13.7)
    Ferritin (CL0044) DUF6692; Domain of unknown function (DUF6692) (PF20402; HMM-score: 13)

⊟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: 0.0012
    • Cytoplasmic Membrane Score: 0.8518
    • Cell wall & surface Score: 0.0336
    • Extracellular Score: 0.1135
  • SignalP: Signal peptide LIPO(Sec/SPII) length 18 aa
    • SP(Sec/SPI): 0.000523
    • TAT(Tat/SPI): 0.00004
    • LIPO(Sec/SPII): 0.999329
    • Cleavage Site: CS pos: 18-19. LAA-CS. Pr: 0.9998
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: WP_000747771 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MKKRYLVLTALLALSLAACSQEKTKNEDGETKTEQTAKADGTVGSKSQGAAQKKAEVVNKGDYYSIQGKYDEIIVANKHYPLSKDYNPGENPTAKAELVKLIKAMQEAGFPISDHYSGFRSYETQTKLYQDYVNQDGKAAADRYSARPGYSEHQTGLAFDVIGTDGDLVTEEKAAQWLLDHAADYGFVVRYLKGKEKETGYMAEEWHLRYVGKEAKEIAASGLSLEEYYGFEGGDYVD

⊟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]

⊟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)

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