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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
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: 09-FEB-2021

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae 6A-10
  • locus tag: HKM25_RS06885 [old locus tag: HKM25_1410 ]
  • pan locus tag?: PNEUPAN002806000
  • symbol: HKM25_RS06885
  • pan gene symbol?: pgdA
  • synonym:
  • product: polysaccharide deacetylase family protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: HKM25_RS06885 [old locus tag: HKM25_1410 ]
  • symbol: HKM25_RS06885
  • product: polysaccharide deacetylase family protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1367379..1368770
  • length: 1392
  • essential: unknown

⊟Accession numbers[edit | edit source]

  • Location: NZ_CP053210 (1367379..1368770) NCBI
  • BioCyc:
  • MicrobesOnline:
  • PneumoBrowse for strain D39V: SPV_1309 PneumoBrowse

⊟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
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    ATGAATAAAAGTAGACTAGGACGTGGCAGACACGGGAAAACGAGACATGTATTATTGGCT
    TTGATTGGTATTTTAGCAATTTCTATTTGCCTATTAGGCGGATTTATTGCTTTTAAGATC
    TACCAGCAAAAAAGTTTTGAGCAAAAGATTGAATCGCTCAAAAAAGAGAAAGATGATCAA
    TTGAGTGAGGGAAATCAGAAGGAGCATTTTCGTCAGGGGCAAGCCGAAGTGATTGCCTAT
    TATCCTCTCCAAGGGGAGAAAGTGATTTCCTCTGTTAGGGAGTTGATAAATCAAGATGTT
    AAGGACAAGCTAGAAAGTAAGGACAATCTTGTTTTCTACTATACAGAGCAAGAAGAGTCA
    GGTTTAAAGGGAGTCGTTAATCGTAATGTGACCAAACAAATCTATGATTTAGTTGCTTTT
    AAAGTTGAAGAGACTGAAAAGACCAGTCTAGGAAAGGTTCACTTAACAGAAGATGGGCAA
    CCTTTTACACTTGACCAACTGTTTTCAGATGCTAGTAAGGCTAAGGAACAGCTGATAAAA
    GAGTTGACCTCCTTCATAGAGGATAAAAAAATAGAGCAAGACCAGAGTGAGCAGATTGTA
    AAAAACTTCTCTGACCAAGACTTGTCTGCATGGAATTTTGATTACAAGGATAGTCAGATT
    ATCCTTTATCCAAGTCCTGTGCTTGAAAATTTAGAAGAGATAGCCTTGCCAGTATCTGCT
    TTCTTTGATGTTATCCAATCTTCGTACTTACTCGAAAAAGATGCGGCCTTGTACCAATCT
    TACTTTGATAAGAAATATCAAAAAGTTGTCGCTCTAACCTTTGATGATGGTCCAAATCCA
    GCAACGACCCCGCAGGTATTAGAGACCCTAGCTAAATATGATATTAAAGCGACTTTCTTT
    GTGCTTGGGAAAAATGTTTCTGGGAATGAGGACTTGGTGAAGAGGATAAAATCTGAAGGT
    CATGTTGTTGGAAACCATAGTTGGAGCCATCCGATTCTCTCGCAACTCTCTCTTGATGAA
    GCTAAAAAGCAGATTACTGATACTGAGGATGTGCTAACTAAAGTGCTGGGTTCTAGTTCT
    AAACTCATGCGTCCACCTTATGGTGCTATTACAGATGATATTCGCAATAGCTTGGATTTG
    AGCTTTATCATGTGGGATGTGGATAGTCTGGACTGGAAGAGTAAAAATGAAGCATCTATT
    TTGACAGAAATTCAGCATCAAGTAGCTAACGGCTCTATCGTTTTGATGCATGATATTCAC
    AGTCCGACAGTCAATGCCTTGCCAAGGGTCATTGAGTATTTGAAAAATCAAGGTTATACC
    TTTGTGACCATACCAGAGATGCTCAATACTCGCCTAAAAGCTCATGAGCTGTACTATAGT
    CGTGATGAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1392

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: HKM25_RS06885 [old locus tag: HKM25_1410 ]
  • symbol: HKM25_RS06885
  • description: polysaccharide deacetylase family protein
  • length: 463
  • theoretical pI: 5.27406
  • theoretical MW: 52700.3
  • GRAVY: -0.417495

⊟Function[edit | edit source]

  • TIGRFAM:
    Cellular processes Cellular processes Sporulation and germination polysaccharide deacetylase family sporulation protein PdaB (TIGR02764; HMM-score: 174)
    Cell structure Cell envelope Biosynthesis and degradation of murein sacculus and peptidoglycan delta-lactam-biosynthetic de-N-acetylase (TIGR02884; EC 3.5.-.-; HMM-score: 139.5)
    Cellular processes Cellular processes Sporulation and germination delta-lactam-biosynthetic de-N-acetylase (TIGR02884; EC 3.5.-.-; HMM-score: 139.5)
    chitooligosaccharide deacetylase NodB (TIGR04243; EC 3.5.1.-; HMM-score: 139.4)
    and 3 more
    Cellular processes Cellular processes Sporulation and germination probable sporulation protein, polysaccharide deacetylase family (TIGR02873; HMM-score: 134.5)
    Metabolism Energy metabolism Biosynthesis and degradation of polysaccharides probable sporulation protein, polysaccharide deacetylase family (TIGR02873; HMM-score: 134.5)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides polysaccharide deacetylase family protein, PEP-CTERM locus subfamily (TIGR03006; HMM-score: 44)
  • TheSEED: data available for D39, Hungary19A-6, TIGR4
  • PFAM:
    no clan defined PgdA_N; Peptidoglycan GlcNAc deacetylase N-terminal domain (PF18627; HMM-score: 281.6)
    and 7 more
    GH_CE (CL0158) Polysacc_deac_1; Polysaccharide deacetylase (PF01522; HMM-score: 122.2)
    Glyco_hydro_57; Glycosyl hydrolase family 57 (PF03065; HMM-score: 16.6)
    Polysacc_deac_2; Divergent polysaccharide deacetylase (PF04748; HMM-score: 14.6)
    no clan defined FAM165; FAM165 family (PF14981; HMM-score: 14)
    DUF2681; Protein of unknown function (DUF2681) (PF10883; HMM-score: 13.1)
    GutM; Glucitol operon activator protein (GutM) (PF06923; HMM-score: 12.8)
    PAP_PilO; Pilin accessory protein (PilO) (PF06864; HMM-score: 10.8)

⊟Structure, modifications & cofactors[edit | edit source]

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

⊟Localization[edit | edit source]

  • PSORTb: Extracellular
    • Cytoplasmic Score: 0.1
    • Cytoplasmic Membrane Score: 0.14
    • Cellwall Score: 0.15
    • Extracellular Score: 9.6
    • Internal Helix: 1
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.086343
    • TAT(Tat/SPI): 0.001384
    • LIPO(Sec/SPII): 0.042942
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: WP_050100548 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MNKSRLGRGRHGKTRHVLLALIGILAISICLLGGFIAFKIYQQKSFEQKIESLKKEKDDQLSEGNQKEHFRQGQAEVIAYYPLQGEKVISSVRELINQDVKDKLESKDNLVFYYTEQEESGLKGVVNRNVTKQIYDLVAFKVEETEKTSLGKVHLTEDGQPFTLDQLFSDASKAKEQLIKELTSFIEDKKIEQDQSEQIVKNFSDQDLSAWNFDYKDSQIILYPSPVLENLEEIALPVSAFFDVIQSSYLLEKDAALYQSYFDKKYQKVVALTFDDGPNPATTPQVLETLAKYDIKATFFVLGKNVSGNEDLVKRIKSEGHVVGNHSWSHPILSQLSLDEAKKQITDTEDVLTKVLGSSSKLMRPPYGAITDDIRNSLDLSFIMWDVDSLDWKSKNEASILTEIQHQVANGSIVLMHDIHSPTVNALPRVIEYLKNQGYTFVTIPEMLNTRLKAHELYYSRDE

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

⊟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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

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