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: 22-NOV-2024

⊟Summary

• organism: Streptococcus pneumoniae gamPNI0373
• locus tag: HMPREF1038_RS05030 [old locus tag: HMPREF1038_01019 ]
• pan locus tag^?: PNEUPAN002003000
• symbol: sdbB
• pan gene symbol^?: sdbB
• synonym:
• product: thiol-disulfide oxidoreductase-associated lipoprotein SdbB

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: HMPREF1038_RS05030 [old locus tag: HMPREF1038_01019 ]
• symbol: sdbB
• product: thiol-disulfide oxidoreductase-associated lipoprotein SdbB
• replicon: chromosome
• strand: +
• coordinates: 926153..926710
• length: 558
• essential: unknown

⊟Accession numbers

• Location: NC_018630 (926153..926710) NCBI
• BioCyc: HMPREF1038_RS05030 BioCyc
• MicrobesOnline:
• PneumoBrowse for strain D39V: SPV_0886 PneumoBrowse

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
  241
  301
  361
  421
  481
  541
  
  ATGAAAAAAGTAATGTTTGCTGGCTTAAGTCTCTTGTCATTAGTTGTATTGATGGCCTGT
  GGTGAGGAAGAAACTAAAAAGACTCAAGCAGCACAACAGCCAAAACAACAAACGACTGTA
  CAACAAATTGCTGTTGGAAAAGATGCTCCAAACTTCACATTGCAATCCATGGATGGCAAA
  GAAGTTAAGTTATCTGATTTTAAGGGTAAAAAGGTTTACTTGAAGTTTTGGGCTTCATGG
  TGCGGTCCATGCAAGAAAAGTATGCCAGAGTTGATGGAACTAGCGGCGAAACCAGATCGT
  GATTTCGAAATTCTTACTGTCATTGCACCAGGAATTCAAGGTGAAAAAACTGTTGAGCAA
  TTCCCACAATGGTTCCAGGAACAAGGATATAAGGATATCCCAGTTCTTTATGATACCAAA
  GCAACCACCTTCCAAGCTTATCAAATTCGAAGCATTCCTACAGAATATTTAATTGATAGC
  CAAGGAAAGATTGGAAAGATTCAATTTGGTGCTATCAGTAATGCGGATGCAGAAACAGCA
  TTTAAAGAAATGAACTAG
  60
  120
  180
  240
  300
  360
  420
  480
  540
  558
  

⊟Protein

⊟General

• locus tag: HMPREF1038_RS05030 [old locus tag: HMPREF1038_01019 ]
• symbol: SdbB
• description: thiol-disulfide oxidoreductase-associated lipoprotein SdbB
• length: 185
• theoretical pI: 8.00449
• theoretical MW: 20730.9
• GRAVY: -0.342703

⊟Function

• TIGRFAM:
  Genetic information processing Protein fate Protein folding and stabilization periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily (TIGR00385; HMM-score: 48.3)
  Metabolism Energy metabolism Electron transport thioredoxin (TIGR01068; HMM-score: 42.3)
  and 9 more
  Genetic information processing Protein fate Protein folding and stabilization methylamine dehydrogenase accessory protein MauD (TIGR02661; HMM-score: 28.2)
  Metabolism Energy metabolism Amino acids and amines methylamine dehydrogenase accessory protein MauD (TIGR02661; HMM-score: 28.2)
  Genetic information processing Protein fate Protein folding and stabilization protein disulfide-isomerase domain (TIGR01126; HMM-score: 26.7)
  protein disulfide isomerase (TIGR01130; HMM-score: 24.8)
  type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB (TIGR02738; HMM-score: 20.5)
  TraF-like protein (TIGR02740; HMM-score: 17.1)
  small lipoprotein, LB_250 family (TIGR04454; HMM-score: 15.7)
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other Fe-S cluster assembly protein NifU (TIGR02000; HMM-score: 12.6)
  Metabolism Central intermediary metabolism Nitrogen fixation Fe-S cluster assembly protein NifU (TIGR02000; HMM-score: 12.6)
• TheSEED: see HMPREF1038_01019
• PFAM:
  Thioredoxin (CL0172) Redoxin; Redoxin (PF08534; HMM-score: 78.3)
  AhpC-TSA; AhpC/TSA family (PF00578; HMM-score: 75.9)
  and 6 more
  Thioredoxin_8; Thioredoxin-like (PF13905; HMM-score: 43.8)
  Thioredoxin; Thioredoxin (PF00085; HMM-score: 40.2)
  Thioredoxin_2; Thioredoxin-like domain (PF13098; HMM-score: 29.7)
  GSHPx; Glutathione peroxidase (PF00255; HMM-score: 17.5)
  no clan defined IMP2_N; Immune Mapped Protein 2 (IMP2) N-terminal domain (PF18590; HMM-score: 13.5)
  Thioredoxin (CL0172) SCO1-SenC; SCO1/SenC (PF02630; HMM-score: 12.7)

⊟Structure, modifications & cofactors

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

⊟Localization

• PSORTb: Cellwall
  • Cytoplasmic Score: 0.01
  • Cytoplasmic Membrane Score: 0.53
  • Cellwall Score: 8.75
  • Extracellular Score: 0.7
  • Internal Helices: 0
• DeepLocPro: Cytoplasmic Membrane
  • Cytoplasmic Score: 0.0001
  • Cytoplasmic Membrane Score: 0.9128
  • Cell wall & surface Score: 0.0198
  • Extracellular Score: 0.0673
• SignalP: Signal peptide LIPO(Sec/SPII) length 19 aa
  • SP(Sec/SPI): 0.002579
  • TAT(Tat/SPI): 0.000047
  • LIPO(Sec/SPII): 0.997226
  • Cleavage Site: CS pos: 19-20. LMA-CG. Pr: 0.9977
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq: WP_000757374 NCBI
• UniProt:

⊟Protein sequence

• MKKVMFAGLSLLSLVVLMACGEEETKKTQAAQQPKQQTTVQQIAVGKDAPNFTLQSMDGKEVKLSDFKGKKVYLKFWASWCGPCKKSMPELMELAAKPDRDFEILTVIAPGIQGEKTVEQFPQWFQEQGYKDIPVLYDTKATTFQAYQIRSIPTEYLIDSQGKIGKIQFGAISNADAETAFKEMN

⊟Experimental data

• protein localization:
• interaction partners:

⊟Expression & Regulation

⊟Operon

⊟Regulation

• regulator:

⊟Transcription

• transcription start site:

⊟Expression data

• PneumoExpress for strain D39V: SPV_0886 PneumoExpress

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You can add further information about the gene and protein here. [edit]

⊟Literature

⊟References

⊟Relevant publications