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: 11-DEC-2024

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae A026
  • locus tag: T308_RS00055 [old locus tag: T308_00055 ]
  • pan locus tag?: PNEUPAN000636000
  • symbol: radA
  • pan gene symbol?: radA
  • synonym:
  • product: DNA repair protein RadA

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: T308_RS00055 [old locus tag: T308_00055 ]
  • symbol: radA
  • product: DNA repair protein RadA
  • replicon: chromosome
  • strand: +
  • coordinates: 5981..7342
  • length: 1362
  • essential: unknown

⊟Accession numbers[edit | edit source]

  • Location: NC_022655 (5981..7342) NCBI
  • BioCyc: T308_RS00055 BioCyc
  • MicrobesOnline:
  • PneumoBrowse for strain D39V: SPV_0029 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
    ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCCCCTAAATAT
    CTGGGACGTTGCCCCAACTGTGGGTCTTGGTCTTCTTTTGTGGAAGAGGTTGAGGTTGCC
    GAGGTCAAGAATGCGCGTGTGTCCTTGACAGGTGAGAAAACCAAGCCCATGAAACTAGCT
    GAGGTGACTTCCATCAATGTCAATCGAACCAAGACGGAGATGGAGGAATTCAACCGTGTG
    CTTGGAGGCGGAGTGGTACCAGGAAGTCTCGTCCTCATCGGTGGGGATCCTGGGATTGGG
    AAATCAACTCTTCTCCTACAAGTCTCAACCCAGTTGTCCCAAGTGGGGACAGTTCTCTAT
    GTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAACTACGTGCAGAGCGCTTAGGTGATATT
    GATAGTGAGTTTTATCTCTATGCAGAGACCAATATGCAGAGTGTTCGTGCAGAAGTGGAG
    CGTATCCAGCCAGACTTTCTCATTATTGATTCCATCCAGACCATCATGTCTCCTGAGATT
    TCAGGGGTGCAGGGGTCTGTTTCTCAGGTACGTGAAGTGACCGCTGAACTCATGCAGTTG
    GCCAAGACCAATAACATTGCCATCTTTATCGTAGGTCATGTGACCAAAGAAGGAACCTTG
    GCTGGGCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
    CACCACACCTTTCGTATTTTGAGAGCGGTCAAAAATCGTTTTGGTTCCACTAATGAGATT
    GGGATTTTTGAGATGCAGTCGGGCGGCTTGGTTGAGGTACTCAATCCGAGTCAAGTTTTC
    CTAGAAGAGCGTTTGGATGGGGCGACTGGTTCCTCCATCGTTGTAACCATGGAAGGGACG
    CGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
    CGTACTACGACAGGACTTGATTTTAACCGTGCTAGCTTGATTATGGCTGTTTTGGAAAAA
    CGGGCAGGGCTTCTCTTGCAAAATCAGGATGCCTATCTCAAATCTGCTGGTGGTGTTAAA
    TTGGATGAACCTGCCATTGACTTGGCTGTTGCAGTTGCTATTGCTTCGAGCTACAAAGAC
    AAGCCAACTAATCCTCAGGAATGTTTTGTCGGAGAACTGGGCTTGACAGGAGAGATTCGG
    CGCGTGAATCGTATTGAGCAACGCATCAACGAAACTGCTAAACTGGGCTTTACTAAGATT
    TATGTACCTCAGAATTCCTTGACAGGAATCACTCTGCCTAAGGAAATTCAGGTCATTGGC
    GTGACAACGATTCAGGAAGTTTTGAAAAAGGTCTTTGCATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1362

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: T308_RS00055 [old locus tag: T308_00055 ]
  • symbol: RadA
  • description: DNA repair protein RadA
  • length: 453
  • theoretical pI: 6.20116
  • theoretical MW: 49462.6
  • GRAVY: -0.0494481

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair protein RadA (TIGR00416; HMM-score: 637.9)
    and 24 more
    Cellular processes Cellular processes Sporulation and germination ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 58.3)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 58.3)
    Cellular processes Cellular processes Sporulation and germination ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 38.7)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 38.7)
    KaiC domain protein, PAE1156 family (TIGR03881; HMM-score: 35.1)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides putative ATP-dependent protease (TIGR00764; HMM-score: 34.9)
    DNA repair and recombination protein RadB (TIGR02237; HMM-score: 34.7)
    Genetic information processing Mobile and extrachromosomal element functions Prophage functions phage replicative helicase, DnaB family (TIGR03600; HMM-score: 29.7)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides endopeptidase La (TIGR00763; EC 3.4.21.53; HMM-score: 24.7)
    Unknown function General Mg chelatase-like protein (TIGR00368; HMM-score: 24.6)
    KaiC domain protein, Ph0284 family (TIGR03877; HMM-score: 22.9)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair replicative DNA helicase (TIGR00665; EC 3.6.4.12; HMM-score: 22.6)
    KaiC domain protein, AF_0351 family (TIGR03880; HMM-score: 18.5)
    meiotic recombinase Dmc1 (TIGR02238; HMM-score: 18.2)
    Metabolism Central intermediary metabolism Phosphorus compounds phosphonate C-P lyase system protein PhnK (TIGR02323; HMM-score: 15.7)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair and recombination protein RadA (TIGR02236; HMM-score: 15.6)
    DNA repair protein RAD51 (TIGR02239; HMM-score: 14)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair protein RecA (TIGR02012; HMM-score: 13.8)
    Metabolism Transport and binding proteins Other pleiotropic drug resistance family protein (TIGR00956; HMM-score: 13.6)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking heme ABC exporter, ATP-binding protein CcmA (TIGR01189; EC 3.6.3.41; HMM-score: 12.1)
    Metabolism Transport and binding proteins Other heme ABC exporter, ATP-binding protein CcmA (TIGR01189; EC 3.6.3.41; HMM-score: 12.1)
    Hypothetical proteins Conserved conserved hypothetical protein (TIGR02653; HMM-score: 12.1)
    Cys-rich peptide, TIGR04165 family (TIGR04165; HMM-score: 12)
    Genetic information processing Protein fate Protein modification and repair hydrogenase nickel insertion protein HypA (TIGR00100; HMM-score: 11.5)
  • TheSEED: data available for D39, Hungary19A-6
  • PFAM:
    P-loop_NTPase (CL0023) AAA_25; AAA domain (PF13481; HMM-score: 58.9)
    ATPase; KaiC (PF06745; HMM-score: 51.5)
    Zn_Beta_Ribbon (CL0167) Rubredoxin_2; Rubredoxin metal binding domain (PF18073; HMM-score: 47.8)
    and 24 more
    S5 (CL0329) ChlI; Subunit ChlI of Mg-chelatase (PF13541; HMM-score: 42.3)
    P-loop_NTPase (CL0023) DnaB_C; DnaB-like helicase C terminal domain (PF03796; HMM-score: 34.4)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 25.2)
    S5 (CL0329) Lon_C; Lon protease (S16) C-terminal proteolytic domain (PF05362; HMM-score: 24.2)
    P-loop_NTPase (CL0023) AAA_22; AAA domain (PF13401; HMM-score: 23.8)
    AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 22.4)
    GvpD_P-loop; GvpD gas vesicle protein, P-loop domain (PF07088; HMM-score: 22.4)
    Rad51; Rad51 (PF08423; HMM-score: 21.5)
    ABC_tran; ABC transporter (PF00005; HMM-score: 20.3)
    AAA_14; AAA domain (PF13173; HMM-score: 18)
    AAA_24; AAA domain (PF13479; HMM-score: 17.7)
    NTPase_1; NTPase (PF03266; HMM-score: 16.8)
    no clan defined HypA; Hydrogenase/urease nickel incorporation, metallochaperone, hypA (PF01155; HMM-score: 16)
    Zn_Beta_Ribbon (CL0167) TF_Zn_Ribbon; TFIIB zinc-binding (PF08271; HMM-score: 15.5)
    P-loop_NTPase (CL0023) TniB; Bacterial TniB protein (PF05621; HMM-score: 15)
    NACHT; NACHT domain (PF05729; HMM-score: 14.8)
    RecA; recA bacterial DNA recombination protein (PF00154; HMM-score: 14.3)
    DUF2075; Schlafen group 3, DNA/RNA helicase domain (PF09848; HMM-score: 14.3)
    MCM; MCM P-loop domain (PF00493; HMM-score: 13.4)
    AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 12.9)
    Zn_Beta_Ribbon (CL0167) Ogr_Delta; Ogr/Delta-like zinc finger (PF04606; HMM-score: 12.5)
    P-loop_NTPase (CL0023) AAA_29; P-loop containing region of AAA domain (PF13555; HMM-score: 12)
    Zeta_toxin; Zeta toxin (PF06414; HMM-score: 11.6)
    Zn_Beta_Ribbon (CL0167) zf-ribbon_3; zinc-ribbon domain (PF13248; HMM-score: 5.9)

⊟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 Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9369
    • Cytoplasmic Membrane Score: 0.025
    • Cell wall & surface Score: 0.0004
    • Extracellular Score: 0.0377
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.02065
    • TAT(Tat/SPI): 0.000323
    • LIPO(Sec/SPII): 0.006154
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: WP_073076903 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVERIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGERHHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIRRVNRIEQRINETAKLGFTKIYVPQNSLTGITLPKEIQVIGVTTIQEVLKKVFA

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟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]

Retrieved from "http://pneumowiki.med.uni-greifswald.de/index.php?title=T308_RS00055&oldid=31582"