⊟Summary[edit | edit source]

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-APR-2021

⊟Summary

• organism: Streptococcus pneumoniae TIGR4
locus tag: SP_RS07265 [old locus tag: SP_1479 ]
pan locus tag^?: PNEUPAN002806000
symbol: SP_RS07265
pan gene symbol^?: pgdA
• synonym:
• product: polysaccharide deacetylase family protein

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SP_RS07265 [old locus tag: SP_1479 ]
• symbol: SP_RS07265
• product: polysaccharide deacetylase family protein
• replicon: chromosome
• strand: -
• coordinates: 1392101..1393492
• length: 1392
• essential: unknown

⊟Accession numbers

• Location: NC_003028 (1392101..1393492) NCBI
• BioCyc: SP_RS07265 BioCyc
• MicrobesOnline: see SP_1479
• PneumoBrowse for strain D39V: SPV_1309 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
  1141
  1201
  1261
  1321
  1381
  
  ATGAATAAAAGTAGACTAGGACGTGGCAGACACGGGAAAACGAGACATGTATTATTGGCT
  TTGATTGGTATTTTAGCAATTTCTATTTGCCTATTAGGCGGATTTATTGCTTTTAAGATC
  TACCAGCAAAAAAGTTTTGAGCAAAAGATTGAATCGCTCAAAAAAGAGAAAGATGATCAA
  TTGAGTGAGGGAAATCAGAAGGAGCATTTTCGTCAGGGGCAAGCCGAAGTGATTGCCTAT
  TATCCTCTCCAAGGGGAGAAAGTGATTTCCTCTGTTAGGGAGCTGATAAATCAAGATGTT
  AAGGACAAGCTAGAAAGTAAGGACAATCTTGTTTTCTACTATACAGAGCAAGAAGAGTCA
  GGTTTAAAGGGAGTCGTTAATCGTAATGTGACCAAACAAATCTATGATTTAGTTGCTTTT
  AAGATTGAAGAGACTGAAAAGACCAGTCTAGGAAAGGTTCACTTAACAGAAGATGGGCAA
  CCTTTTACACTTGACCAACTGTTTTCAGATGCTAGTAAGGCTAAGGAACAGCTGATAAAA
  GAGTTGACCTCCTTCATAGAGGATAAAAAAATAGAGCAAGACCAGAGTGAGCAGATTGTA
  AAAAACTTCTCTGACCAAGACTTGTCTGCATGGAATTTTGATTACAAGGATAGTCAGATT
  ATCCTTTATCCAAGTCCTGTGGTTGAAAATTTAGAAGAGATAGCCTTGCCAGTATCTGCT
  TTCTTTGATGTTATCCAATCTTCGTACTTACTCGAAAAAGATGCGGCCTTGTACCAATCT
  TACTTTGATAAGAAACATCAAAAAGTTGTCGCTCTAACCTTTGATGATGGTCCAAATCCA
  GCAACGACCCCGCAGGTATTAGAGACCCTAGCTAAATATGATATTAAAGCGACTTTCTTT
  GTGCTTGGGAAAAATGTTTCTGGGAATGAGGACTTGGTGAAGAGGATAAAATCTGAAGGT
  CATGTTGTTGGAAACCATAGCTGGAGCCATCCGATTCTCTCGCAACTCTCTCTTGATGAA
  GCTAAAAAGCAGATTACTGATACTGAGGATGTGCTAACTAAAGTGCTGGGTTCTAGTTCT
  AAACTCATGCGTCCACCTTATGGTGCTATTACAGATGATATTCGCAATAGCTTGGATTTG
  AGCTTTATCATGTGGGATGTGGATAGTCTGGACTGGAAGAGTAAAAATGAAGCATCTATT
  TTGACAGAAATTCAGTATCAAGTAGCTAATGGCTCTATCGTTTTGATGCATGATATTCAC
  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

⊟General

• locus tag: SP_RS07265 [old locus tag: SP_1479 ]
• symbol: SP_RS07265
• description: polysaccharide deacetylase family protein
• length: 463
• theoretical pI: 5.27406
• theoretical MW: 52700.3
• GRAVY: -0.415983

⊟Function

• ⊞⊞TIGRFAM:
  Cellular processes Cellular processes Sporulation and germination polysaccharide deacetylase family sporulation protein PdaB (TIGR02764; HMM-score: 173.5)
  Cell structure Cell envelope Biosynthesis and degradation of murein sacculus and peptidoglycan delta-lactam-biosynthetic de-N-acetylase (TIGR02884; EC 3.5.-.-; HMM-score: 139.2)
  Cellular processes Cellular processes Sporulation and germination delta-lactam-biosynthetic de-N-acetylase (TIGR02884; EC 3.5.-.-; HMM-score: 139.2)
  and 4 more
  chitooligosaccharide deacetylase NodB (TIGR04243; EC 3.5.1.-; HMM-score: 138.4)
  Cellular processes Cellular processes Sporulation and germination probable sporulation protein, polysaccharide deacetylase family (TIGR02873; HMM-score: 133.9)
  Metabolism Energy metabolism Biosynthesis and degradation of polysaccharides probable sporulation protein, polysaccharide deacetylase family (TIGR02873; HMM-score: 133.9)
  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: see SP_1479
• ⊞⊞PFAM:
  no clan defined PgdA_N; Peptidoglycan GlcNAc deacetylase N-terminal domain (PF18627; HMM-score: 284.7)
  and 7 more
  GH_CE (CL0158) Polysacc_deac_1; Polysaccharide deacetylase (PF01522; HMM-score: 123.2)
  Glyco_hydro_57; Glycosyl hydrolase family 57 (PF03065; HMM-score: 17.6)
  Polysacc_deac_2; Divergent polysaccharide deacetylase (PF04748; HMM-score: 14.5)
  no clan defined FAM165; FAM165 family (PF14981; HMM-score: 14)
  DUF2681; Protein of unknown function (DUF2681) (PF10883; HMM-score: 13)
  GutM; Glucitol operon activator protein (GutM) (PF06923; HMM-score: 12.7)
  PAP_PilO; Pilin accessory protein (PilO) (PF06864; HMM-score: 10.7)

⊟Structure, modifications & cofactors

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

⊟Localization

• ⊞⊞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

• GI:
• RefSeq: WP_001808499 NCBI
• UniProt: see SP_1479

⊟Protein sequence

• MNKSRLGRGRHGKTRHVLLALIGILAISICLLGGFIAFKIYQQKSFEQKIESLKKEKDDQLSEGNQKEHFRQGQAEVIAYYPLQGEKVISSVRELINQDVKDKLESKDNLVFYYTEQEESGLKGVVNRNVTKQIYDLVAFKIEETEKTSLGKVHLTEDGQPFTLDQLFSDASKAKEQLIKELTSFIEDKKIEQDQSEQIVKNFSDQDLSAWNFDYKDSQIILYPSPVVENLEEIALPVSAFFDVIQSSYLLEKDAALYQSYFDKKHQKVVALTFDDGPNPATTPQVLETLAKYDIKATFFVLGKNVSGNEDLVKRIKSEGHVVGNHSWSHPILSQLSLDEAKKQITDTEDVLTKVLGSSSKLMRPPYGAITDDIRNSLDLSFIMWDVDSLDWKSKNEASILTEIQYQVANGSIVLMHDIHSPTVNALPRVIEYLKNQGYTFVTIPEMLNTRLKAHELYYSRDE

⊟Experimental data

• protein localization:
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: no polycistronic organisation predicted

⊟Regulation

• regulator: ComX1 see SP_1479

⊟Expression data

• PneumoExpress for strain D39V: SPV_1309 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