From PneumoWiki
Jump to navigation Jump to search
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: 26-AUG-2017

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae SPN994038
  • locus tag: SPN994038_01430 [new locus tag: SPN994038_RS00785 ]
  • pan locus tag?: PNEUPAN000067000
  • symbol: SPN994038_01430
  • pan gene symbol?: rtgB
  • synonym:
  • product: Secreted protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SPN994038_01430 [new locus tag: SPN994038_RS00785 ]
  • symbol: SPN994038_01430
  • product: Secreted protein
  • replicon: chromosome
  • strand: +
  • coordinates: 140232..141584
  • length: 1353
  • essential: unknown

⊟Accession numbers[edit | edit source]

  • Location: FQ312041 (140232..141584) NCBI
  • BioCyc:
  • MicrobesOnline:
  • PneumoBrowse for strain D39V: SPV_0115 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
    ATGAAATTATATAATAAATCAGAATTACGTTATTCTCGTATTTTCTTTGATAAGAGACCA
    CCAGCTTTTGCGTTTATTCTCATTATTTCAACTGCTATTATCTTAAGCGGTGCATTGGTT
    GGCGCAGCTTATATACCCAAAAACTATATTGTAAAAGCGAATGGAAATTCAGTTATAACA
    GGTACAGAGTTCCTATCAGCAATTGGTTCAGGGAAGGTAGTTACTTTACATAAGTCAGAA
    GGAGATATGGTAAATGCTGGAGATGTCATTATTTCGTTATCAAGTGGACAAGAAGGTTTA
    CAAGCGAGCTCTTTAAATAAACAATTGGAGAAGTTACGTGCAAAAGAAGCTATCTTTCAA
    AAATTTGAACAATCATTAAATGAGAAATACAATCATTTATCTAATTCTGGTGAAGAACAG
    GAATATTATGGGAAAGTTGAATACTATCTGTCTCAGTTAAACTCGGAAAATTATAATAAT
    GGTACCCAGTATTCAAAGATTCAGGATGAATATACGAAGTTGAATAAAATAACAGCTGAA
    AGAAATCAGTTAGATGCCGACTTGCAAACTCTACAAAATGAATTGATTCAACTTCAACAG
    CAAGGAGACTCATCCTCCTTATCAGATACGACATCAGATGATGATAAAGCTAAGTTAGAA
    ACTAAGATATCAGAAATAACAACAAAAATCGAAGCATTAAAAACAAATATTACTTCTAAG
    AATAGCGAGATTGATAGTCAACAAAGCAATATTAAGGATATGAACCGTACCTATAATGAT
    CCAACTTCTCAGGCTTATAATATTTATGCTCAATTAATTAGTGAGTTAGGTACTGCTCGT
    TCAAACAACAATAAAAGTATTACAGAGCTTGAGGCTAATCTTGGAGTGGCAACAGGTCAA
    GATAAAGCTCATAGTATATTAGCGTCAAATGAAGGTACTCTGCATTATCTGGTACCTTTG
    AAACAAGGAATGTCTATTCAGCAGGGGCAAACGATAGCAGAAGTTTCAGGGAAAGAAAAA
    GGTTACTATGTAGAGGCTTTTGTACTTGCGAGTGATATTTCTCGTGTTTCAAAAGGAGCA
    AAAGTTGATGTTGCTATTACTGGTGTGAATAGTCAAAAATATGGAACACTAAAGGGACAA
    GTCAGACAGATTGATTCAGGAACAATTTCCCAAGAAACGAAAGAGGGGAATATTAGCCTC
    TATAAAGTCATGATAGAATTAGAAACCTTAACTCTAAAACATGGAAGCGAGACGGTCATA
    CTCCAAAAGGATATGCCAGTTGAAGTGCGGATTGTCTATGATAAAGAAACCTATCTTGAT
    TGGATTTTAGAAATGTTAAGTTTCAAGCAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1353

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SPN994038_01430 [new locus tag: SPN994038_RS00785 ]
  • symbol: SPN994038_01430
  • description: Secreted protein
  • length: 450
  • theoretical pI: 5.24559
  • theoretical MW: 49970.8
  • GRAVY: -0.462889

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type I secretion membrane fusion protein, HlyD family (TIGR01843; HMM-score: 114.7)
    and 12 more
    Metabolism Transport and binding proteins Other bacteriocin secretion accessory protein (TIGR01000; HMM-score: 83.9)
    Cellular processes Cellular processes Biosynthesis of natural products NHLM bacteriocin system secretion protein (TIGR03794; HMM-score: 41.2)
    Metabolism Transport and binding proteins Amino acids, peptides and amines NHLM bacteriocin system secretion protein (TIGR03794; HMM-score: 41.2)
    Cellular processes Cellular processes Cell division chromosome segregation protein SMC (TIGR02168; HMM-score: 28.6)
    Genetic information processing DNA metabolism Chromosome-associated proteins chromosome segregation protein SMC (TIGR02168; HMM-score: 28.6)
    Metabolism Transport and binding proteins Unknown substrate efflux transporter, RND family, MFP subunit (TIGR01730; HMM-score: 28)
    Cellular processes Cellular processes Cell division chromosome segregation protein SMC (TIGR02169; HMM-score: 26.8)
    Genetic information processing DNA metabolism Chromosome-associated proteins chromosome segregation protein SMC (TIGR02169; HMM-score: 26.8)
    Metabolism Transport and binding proteins Other efflux pump membrane protein (TIGR00998; HMM-score: 25.4)
    ABC exporter membrane fusion protein, DevB family (TIGR02971; HMM-score: 17.7)
    SH3 domain protein (TIGR04211; HMM-score: 11.4)
    helix-rich protein (TIGR04523; HMM-score: 8.8)
  • TheSEED: data available for D39
  • PFAM:
    Hybrid (CL0105) HlyD_3; HlyD family secretion protein (PF13437; HMM-score: 54.1)
    and 27 more
    Biotin_lipoyl_2; Biotin-lipoyl like (PF13533; HMM-score: 33.3)
    Biotin_lipoyl; Biotin-requiring enzyme (PF00364; HMM-score: 20.5)
    QRPTase_N; Quinolinate phosphoribosyl transferase, N-terminal domain (PF02749; HMM-score: 19.8)
    HlyD_D23; Barrel-sandwich domain of CusB or HlyD membrane-fusion (PF16576; HMM-score: 18.6)
    CusB_dom_1; Cation efflux system protein CusB domain 1 (PF00529; HMM-score: 17)
    no clan defined UPF0242; Uncharacterised protein family (UPF0242) N-terminus (PF06785; HMM-score: 15.8)
    PilJ; Type IV pili methyl-accepting chemotaxis transducer N-term (PF13675; HMM-score: 15.8)
    Filament; Intermediate filament protein (PF00038; HMM-score: 15.1)
    SlyX; SlyX (PF04102; HMM-score: 13.2)
    SOK; Protein SOSEKI, plant (PF06136; HMM-score: 11.9)
    Cob_adeno_trans (CL0601) Cob_adeno_trans; Cobalamin adenosyltransferase (PF01923; HMM-score: 11.8)
    no clan defined ERM_helical; Ezrin/radixin/moesin, alpha-helical domain (PF20492; HMM-score: 11.3)
    GTP-bdg_M; GTP-binding GTPase Middle Region (PF16360; HMM-score: 10.7)
    DUF4407; Domain of unknown function (DUF4407) (PF14362; HMM-score: 10.2)
    OmpH; Outer membrane protein (OmpH-like) (PF03938; HMM-score: 9.6)
    DUF2203; Uncharacterized conserved protein (DUF2203) (PF09969; HMM-score: 8.3)
    THOC7; Tho complex subunit 7 (PF05615; HMM-score: 8)
    DUF4140; N-terminal domain of unknown function (DUF4140) (PF13600; HMM-score: 7.9)
    FtsL (CL0225) DivIC; Septum formation initiator (PF04977; HMM-score: 7.7)
    no clan defined FlaC_arch; Flagella accessory protein C (FlaC) (PF05377; HMM-score: 7.7)
    Tropomyosin-lke (CL0452) CLZ; C-terminal leucine zipper domain of cyclic nucleotide-gated channels (PF16526; HMM-score: 7.7)
    no clan defined DUF724; Protein of unknown function (DUF724) (PF05266; HMM-score: 7.5)
    Spc24; Spc24 subunit of Ndc80 (PF08286; HMM-score: 7.1)
    DUF5713; Family of unknown function (DUF5713) (PF18977; HMM-score: 6.8)
    EAD9; Effector-associated domain 9 (PF19962; HMM-score: 6.8)
    DUF3450; Protein of unknown function (DUF3450) (PF11932; HMM-score: 6.2)
    Crescentin; Crescentin protein (PF19220; HMM-score: 5.9)

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

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

⊟Localization[edit | edit source]

  • 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
  • DeepLocPro: Cytoplasmic Membrane
    • Cytoplasmic Score: 0.0005
    • Cytoplasmic Membrane Score: 0.9011
    • Cell wall & surface Score: 0.0011
    • Extracellular Score: 0.0973
  • SignalP: Signal peptide SP(Sec/SPI) length 42 aa
    • SP(Sec/SPI): 0.485783
    • TAT(Tat/SPI): 0.004088
    • LIPO(Sec/SPII): 0.039872
    • Cleavage Site: CS pos: 42-43. VGA-AY. Pr: 0.3727
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: CCP29879 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MKLYNKSELRYSRIFFDKRPPAFAFILIISTAIILSGALVGAAYIPKNYIVKANGNSVITGTEFLSAIGSGKVVTLHKSEGDMVNAGDVIISLSSGQEGLQASSLNKQLEKLRAKEAIFQKFEQSLNEKYNHLSNSGEEQEYYGKVEYYLSQLNSENYNNGTQYSKIQDEYTKLNKITAERNQLDADLQTLQNELIQLQQQGDSSSLSDTTSDDDKAKLETKISEITTKIEALKTNITSKNSEIDSQQSNIKDMNRTYNDPTSQAYNIYAQLISELGTARSNNNKSITELEANLGVATGQDKAHSILASNEGTLHYLVPLKQGMSIQQGQTIAEVSGKEKGYYVEAFVLASDISRVSKGAKVDVAITGVNSQKYGTLKGQVRQIDSGTISQETKEGNISLYKVMIELETLTLKHGSETVILQKDMPVEVRIVYDKETYLDWILEMLSFKQ

⊟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]

Retrieved from "http://pneumowiki.med.uni-greifswald.de/index.php?title=SPN994038_01430&oldid=147934"