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

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

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: 13-DEC-2020

⊟Summary

• organism: Streptococcus pneumoniae A66
• locus tag: A66_RS10030 [old locus tag: A66_02002 ]
• pan locus tag^?: PNEUPAN003917000
• symbol: cbpD
• pan gene symbol^?: cbpD
• synonym:
• product: choline binding-anchored murein hydrolase CbpD

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: A66_RS10030 [old locus tag: A66_02002 ]
• symbol: cbpD
• product: choline binding-anchored murein hydrolase CbpD
• replicon: chromosome
• strand: -
• coordinates: 1915693..1916811
• length: 1119
• essential: unknown

⊟Accession numbers

• Location: NZ_LN847353 (1915693..1916811) NCBI
• BioCyc:
• MicrobesOnline:
• PneumoBrowse for strain D39V: SPV_2028 PneumoBrowse

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
  241
  301
  361
  421
  481
  541
  601
  661
  721
  781
  841
  901
  961
  1021
  1081
  
  ATGAAAATTTTACCGTTTATAGCAAGAGGAACAAGTTATTACTTGAAGATGTCAGTTAAA
  AAGCTTGTTCCTTTTTTAGTAGTAGGATTGATGCTAGCAGCTGGTGATAGTGTCTATGCC
  TATTCCAGAGGAAATGGATCGATTGCGCGTGGGGATGATTATCCTGCTTATTATAAAAAT
  GGGAGCCAGGAGATTGATCAGTGGCGCATGTATTCTCGTCAGTGTACTTCTTTTGTAGCC
  TTTCGTTTGAGTAATGTCAATGGTTTTGAAATTCCGGCAGCTTATGGAAATGCGAATGAA
  TGGGGACATCGTGCTCGTCGGGAAGGTTATCGTGTAGATAATACACCGACGATTGGTTCC
  ATTACTTGGTCTACTGCAGGAACTTATGGTCATGTTGCCTGGGTGTCAAATGTAATGGGA
  GATCAGATTGAGATTGAGGAATATAACTATGGTTATACAGAATCCTATAATAAACGAGTT
  GTAAAAGCAAACACGATGACAGGATTTATTCATTTTAAAGATTTGGATGGCGGCAGTGTT
  GGGAATAGTCAATCCTCAGCTTCAACAGGCGGAACTCATTATTTTAAGACCAAGTCTGCT
  ATTAAAACTGAACCCCTAGCTAGCGGAACTGTGATTGATTACTATTATCCTGGGGAGAAG
  GTTCATTATGATCAGATACTTGAAAAAGACGGCTACAAGTGGTTGAGTTATACTGCCTAT
  AATGGAAGTCGTCGCTATATACAGCTAGAGGGAGTGACTTCTTCACAAAATTATCAGAAT
  CAATCAGGAAATATCTCTAGCTATGGATCCAATAATAGTTCAACTGTCGGTTGGAAGAAA
  ATAAATGGTAGTTGGTATCATTTCAAATCAAATGGTTCTAAATCAACAGGATGGCTGAAA
  GACGGTTCTAGCTGGTATTATTTGAAATTATCTGGTGAAATGCAGACAGGATGGTTAAAG
  GAAAATGGTTTGTGGTATTATCTGGGTAGTTCAGGGGCAATGAAAACAGGCTGGTACCAG
  GTCTCTGGTAAGTGGTATTATTCTTACTCTTCAGGCGCCTTAGCTGTTAATACGACGGTG
  GATGGCTACAGAGTAAACAGTGATGGAGAACGAGTATAG
  60
  120
  180
  240
  300
  360
  420
  480
  540
  600
  660
  720
  780
  840
  900
  960
  1020
  1080
  1119
  

⊟Protein

⊟General

• locus tag: A66_RS10030 [old locus tag: A66_02002 ]
• symbol: CbpD
• description: choline binding-anchored murein hydrolase CbpD
• length: 372
• theoretical pI: 9.42632
• theoretical MW: 41693.9
• GRAVY: -0.584677

⊟Function

• TIGRFAM:
  glucan-binding repeat (TIGR04035; HMM-score: 24.9)
• TheSEED: data available for D39, Hungary19A-6, TIGR4
• PFAM:
  SH3 (CL0010) SH3_5; Bacterial SH3 domain (PF08460; HMM-score: 84.4)
  Choline_binding (CL0694) Choline_bind_1; Putative cell wall binding repeat (PF01473; HMM-score: 81.1)
  and 3 more
  Choline_bind_3; Choline-binding repeat (PF19127; HMM-score: 61.1)
  Peptidase_CA (CL0125) CHAP; CHAP domain (PF05257; HMM-score: 46.2)
  Choline_binding (CL0694) Choline_bind_2; Choline-binding repeat (PF19085; HMM-score: 23.2)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effectors:

⊟Localization

• PSORTb: unknown (no significant prediction)
  • Cytoplasmic Score: 2.5
  • Cytoplasmic Membrane Score: 2.5
  • Cellwall Score: 2.5
  • Extracellular Score: 2.5
  • Internal Helix: 1
• SignalP: Signal peptide SP(Sec/SPI) length 40 aa
  • SP(Sec/SPI): 0.922642
  • TAT(Tat/SPI): 0.00427
  • LIPO(Sec/SPII): 0.058607
  • Cleavage Site: CS pos: 40-41. VYA-YS. Pr: 0.8466
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq: WP_053039810 NCBI
• UniProt:

⊟Protein sequence

• MKILPFIARGTSYYLKMSVKKLVPFLVVGLMLAAGDSVYAYSRGNGSIARGDDYPAYYKNGSQEIDQWRMYSRQCTSFVAFRLSNVNGFEIPAAYGNANEWGHRARREGYRVDNTPTIGSITWSTAGTYGHVAWVSNVMGDQIEIEEYNYGYTESYNKRVVKANTMTGFIHFKDLDGGSVGNSQSSASTGGTHYFKTKSAIKTEPLASGTVIDYYYPGEKVHYDQILEKDGYKWLSYTAYNGSRRYIQLEGVTSSQNYQNQSGNISSYGSNNSSTVGWKKINGSWYHFKSNGSKSTGWLKDGSSWYYLKLSGEMQTGWLKENGLWYYLGSSGAMKTGWYQVSGKWYYSYSSGALAVNTTVDGYRVNSDGERV

⊟Experimental data

• protein localization:
• interaction partners:

⊟Expression & Regulation

⊟Operon

⊟Regulation

• data available for D39, TIGR4

⊟Expression data

• PneumoExpress for strain D39V: SPV_2028 PneumoExpress

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications

Vegard Eldholm, Ola Johnsborg, Kristine Haugen, Hilde Solheim Ohnstad, Leiv Sigve Håvarstein
Fratricide in Streptococcus pneumoniae: contributions and role of the cell wall hydrolases CbpD, LytA and LytC.
Microbiology (Reading): 2009, 155(Pt 7);2223-2234
[PubMed:19389766] [WorldCat.org] [DOI] (P p)