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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
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: 31-JAN-2014

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae TIGR4
  • locus tag: SP_1739 [new locus tag: SP_RS08605 ]
  • pan locus tag?: PNEUPAN003162000
  • symbol: SP_1739
  • pan gene symbol?: rny
  • synonym:
  • product: KH domain protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SP_1739 [new locus tag: SP_RS08605 ]
  • symbol: SP_1739
  • product: KH domain protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1643241..1644845
  • length: 1605
  • essential: unknown

⊟Accession numbers[edit | edit source]

⊟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
    1441
    1501
    1561
    ATGTCGCTTGCGATTGCTGTTTTTGCCGTCATCATTGGTTTAGTCATTGGATATGTCAGC
    ATCTCAGCTAAGATGAAATCATCTCAGGAAGCTGCAGAGTTGATGCTTTTAAATGCTGAA
    CAAGAAGCAACTAATTTACGTGGACAAGCTGAGCGTGAAGCGGATTTACTTGTTAATGAA
    GCCAAACGTGAAAGCAAGTCTCTTAAAAAAGAAGCACTATTGGAGGCCAAAGAAGAAGCC
    AGAAAATACCGTGAAGAAGTGGACGCTGAATTCAAATCAGAACGTCAAGAACTCAAACAA
    ATCGAAAGTCGTTTGACAGAGAGAGCTACTAGCCTTGACCGTAAGGACGACAATTTGACG
    AGTAAAGAACAAACACTTGAACAAAAAGAACAAAGTATTTCTGATAGAGCGAAAAACCTT
    GATGCGCGTGAAGAGCAATTAGAGGAAGTCGAAAGACAAAAAGAAGCAGAACTAGAGCGT
    ATTGGTGCGCTGTCTCAGGCAGAAGCACGAGATATTATCTTGGCTCAGACAGAGGAAAAC
    TTGACCAGGGAGATTGCCAGTCGCATTCGCGAAGCTGAGCAAGAGGTCAAGGAACGTTCT
    GACAAAATGGCCAAGGACATCTTGGTTCAAGCTATGCAACGTATCGCTGGTGAATATGTA
    GCGGAGTCAACAAACTCAACAGTTCATCTGCCAGACGATACTATGAAGGGACGCATTATT
    GGTCGTGAAGGTCGTAACATTCGTACCTTTGAAAGTTTGACAGGGGTCGATGTGATTATC
    GACGATACACCAGAAGTGGTGACCTTGTCAGGATTTGATCCGATTCGTCGTGAGATTGCC
    CGTATGACTATGGAAATGTTGCTCAAAGATGGTCGTATACATCCAGCTCGTATCGAAGAG
    TTGGTTGAGAAAAACCGTCAAGAGATTGACAATAAGATTCGTGAATACGGTGAGGCTGCT
    GCCTATGAAATTGGTGCGCCAAACCTTCATCCAGACTTGATGAAGATTATGGGACGTTTG
    CAGTTCCGTACTTCATATGGACAAAATGTTTTGCGCCATTCGATTGAGGTTGCTAAGTTG
    GCTGGTATCATGGCGAGCGAACTTGGTGAAAATGCGGCTCTTGCCCGTCGTGCTGGATTC
    CTTCACGATATCGGGAAAGCCATTGACCATGAGGTTGAAGGTAGCCACGTTGAAATCGGT
    ATGGAATTGGCCCGTAAGTACAAGGAACCCCCAGTTGTGGTGAATACGATTGCTAGTCAC
    CACGGAGATGTTGAAGCTGAGAGCGTGATAGCAGTTATCGTCGCTGCAGCAGATGCCTTG
    AGCGCAGCCCGTCCAGGTGCTCGTAGTGAGTCTCTTGAAAGCTACATCAAGCGTCTCCAT
    GATTTGGAAGAAATTGCTAACGGCTTTGAAGGAGTGCAAACTAGCTTTGCCCTTCAAGCA
    GGACGTGAAATTCGTATCATGGTCAATCCAGGAAAAATCAAGGACGACAAAGTCACAATC
    TTGGCTCACAAAGTTCGTAAGAAAATTGAAAACAATCTCGATTATCCAGGAAATATCAAG
    GTAACCGTGATTCGCGAGCTTCGTGCAGTAGATTATGCTAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1605

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SP_1739 [new locus tag: SP_RS08605 ]
  • symbol: SP_1739
  • description: KH domain protein
  • length: 534
  • theoretical pI: 5.13649
  • theoretical MW: 59856.5
  • GRAVY: -0.488951

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Transcription Degradation of RNA ribonuclease Y (TIGR03319; EC 3.1.-.-; HMM-score: 776.8)
    and 13 more
    HDIG domain (TIGR00277; HMM-score: 92.2)
    arCOG04150 universal archaeal KH domain protein (TIGR03665; HMM-score: 34.6)
    ATP synthase archaeal, H subunit (TIGR02926; EC 3.6.3.14; HMM-score: 20.7)
    Hypothetical proteins Conserved TIGR00295 family protein (TIGR00295; HMM-score: 20.2)
    CRISPR-associated endonuclease Cas3-HD (TIGR01596; EC 3.1.-.-; HMM-score: 17.3)
    two transmembrane protein (TIGR04527; HMM-score: 10.6)
    Cellular processes Cellular processes Cell division chromosome segregation protein SMC (TIGR02168; HMM-score: 10.3)
    Genetic information processing DNA metabolism Chromosome-associated proteins chromosome segregation protein SMC (TIGR02168; HMM-score: 10.3)
    Cellular processes Cellular processes Cell division chromosome segregation protein SMC (TIGR02169; HMM-score: 6.8)
    Genetic information processing DNA metabolism Chromosome-associated proteins chromosome segregation protein SMC (TIGR02169; HMM-score: 6.8)
    Metabolism Energy metabolism ATP-proton motive force interconversion V-type ATPase, G subunit (TIGR01147; EC 3.6.3.14; HMM-score: 5.8)
    Genetic information processing Mobile and extrachromosomal element functions Plasmid functions integrating conjugative element protein, PFL_4705 family (TIGR03752; HMM-score: 4)
    Treponema denticola clustered lipoprotein (TIGR01781; HMM-score: 3.7)
  • TheSEED  :
    • Ribonuclease Y
    Competence or DNA damage-inducible protein CinA and related protein families  FIG002344: Hydrolase (HAD superfamily)
  • PFAM:
    no clan defined RNase_Y_N; RNase Y N-terminal region (PF12072; HMM-score: 153.8)
    and 12 more
    HD_PDEase (CL0237) HD; HD domain (PF01966; HMM-score: 68)
    KH (CL0007) KH_1; KH domain (PF00013; HMM-score: 34.6)
    HD_PDEase (CL0237) HDOD; HDOD domain (PF08668; HMM-score: 24.5)
    ATP_synthase (CL0255) ATP-synt_B; ATP synthase B/B' CF(0) (PF00430; HMM-score: 19.4)
    V-ATPase_G; Vacuolar (H+)-ATPase G subunit (PF03179; HMM-score: 17.6)
    no clan defined DivIVA; DivIVA protein (PF05103; HMM-score: 16.6)
    KH (CL0007) KH_4; KH domain (PF13083; HMM-score: 15.6)
    KH_2; KH domain (PF07650; HMM-score: 13.1)
    no clan defined Streptin-Immun; Lantibiotic streptin immunity protein (PF11083; HMM-score: 12.7)
    IHF-likeDNA-bdg (CL0548) HU-CCDC81_bac_2; CCDC81-like prokaryotic HU domain 2 (PF18175; HMM-score: 12.2)
    no clan defined EpuA; DNA-directed RNA polymerase subunit beta (PF11772; HMM-score: 10.5)
    Noelin-1; Neurogenesis glycoprotein (PF12308; HMM-score: 7.6)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helix: 1
  • DeepLocPro: Cytoplasmic Membrane
    • Cytoplasmic Score: 0.0243
    • Cytoplasmic Membrane Score: 0.8983
    • Cell wall & surface Score: 0.0034
    • Extracellular Score: 0.074
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.435967
    • TAT(Tat/SPI): 0.003268
    • LIPO(Sec/SPII): 0.086398
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSLAIAVFAVIIGLVIGYVSISAKMKSSQEAAELMLLNAEQEATNLRGQAEREADLLVNEAKRESKSLKKEALLEAKEEARKYREEVDAEFKSERQELKQIESRLTERATSLDRKDDNLTSKEQTLEQKEQSISDRAKNLDAREEQLEEVERQKEAELERIGALSQAEARDIILAQTEENLTREIASRIREAEQEVKERSDKMAKDILVQAMQRIAGEYVAESTNSTVHLPDDTMKGRIIGREGRNIRTFESLTGVDVIIDDTPEVVTLSGFDPIRREIARMTMEMLLKDGRIHPARIEELVEKNRQEIDNKIREYGEAAAYEIGAPNLHPDLMKIMGRLQFRTSYGQNVLRHSIEVAKLAGIMASELGENAALARRAGFLHDIGKAIDHEVEGSHVEIGMELARKYKEPPVVVNTIASHHGDVEAESVIAVIVAAADALSAARPGARSESLESYIKRLHDLEEIANGFEGVQTSFALQAGREIRIMVNPGKIKDDKVTILAHKVRKKIENNLDYPGNIKVTVIRELRAVDYAK

⊟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: 1644896 [1]

⊟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]

  1. ↑ 1.0 1.1 Indu Warrier, Nikhil Ram-Mohan, Zeyu Zhu, Ariana Hazery, Haley Echlin, Jason Rosch, Michelle M Meyer, Tim van Opijnen
    The Transcriptional landscape of Streptococcus pneumoniae TIGR4 reveals a complex operon architecture and abundant riboregulation critical for growth and virulence.
    PLoS Pathog: 2018, 14(12);e1007461
    [PubMed:30517198] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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