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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: 13-FEB-2020

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae D39V
  • locus tag: SPV_1399 [new locus tag: SPV_RS07435 ]
  • pan locus tag?: PNEUPAN002953000
  • symbol: clpX
  • pan gene symbol?: clpX
  • synonym:
  • product: ATP-dependent Clp protease ATP-binding subunit ClpX

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SPV_1399 [new locus tag: SPV_RS07435 ]
  • symbol: clpX
  • product: ATP-dependent Clp protease ATP-binding subunit ClpX
  • replicon: chromosome
  • strand: -
  • coordinates: 1419415..1420647
  • length: 1233
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Location: CP027540 (1419415..1420647) NCBI
  • BioCyc: SPV_1399 BioCyc
  • MicrobesOnline:
  • PneumoBrowse: SPV_1399 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
    ATGTCTACAAATAGAAAAAATGATATGATGGTTTATTGCTCATTTTGTGGCAAAAACCAA
    GAAGAAGTACAAAAAATAATTGCTGGCAACAATGCTTTTATTTGTAATGAATGCGTGGAG
    TTAGCTCAGGAAATCATTCGAGAAGAATTGGTTGAGGAAGTCTTGGCAGACTTGTCTGAG
    GTGCCAAAACCAATTGAACTCCTCCATATCTTGAACCACTATGTAATTGGTCAAGATCGT
    GCCAAGCGTGCCTTGGCAGTGGCGGTTTATAACCACTACAAACGCATCAATTTCCACGAT
    ACACGCGAAGAGTCAGAAGATGTGGATTTGCAGAAGTCAAACATTTTGATGATTGGCCCA
    ACTGGTTCAGGGAAAACTTTCCTTGCCCAGACCTTGGCTAAGAGCTTGAATGTGCCTTTT
    GCTATTGCGGATGCGACAGCTCTGACGGAGGCTGGTTATGTGGGTGAGGACGTGGAAAAT
    ATCCTCCTCAAACTCTTGCAGGTTGCTGACTTTAACATCGAACGTGCAGAGCGTGGCATT
    ATCTATGTGGATGAAATTGACAAGATTGCCAAGAAGAGTGAGAATGTGTCTATCACACGT
    GATGTTTCTGGTGAAGGGGTGCAACAAGCCCTTCTCAAGATTATCGAGGGAACTGTTGCT
    AGCGTACCGCCTCAAGGTGGACGCAAACATCCACAACAAGAGATGATTCAAGTGGATACA
    AAAAATATCCTCTTCATCGTGGGTGGTGCTTTTGATGGTATTGAAGAAATTGTCAAACAA
    CGTCTGGGTGAAAAAGTCATCGGATTTGGTCAAAACAATAAGGCGATTGACGAAAACAGC
    TCATACATGCAAGAAATCATCGCTGAAGACATTCAAAAATTTGGTATTATCCCTGAGTTG
    ATTGGACGCTTGCCTGTTTTTGCGGCTCTTGAGCAATTGACCGTTGATGACTTGGTTCGC
    ATCTTGAAAGAGCCAAGAAATGCCTTGGTGAAACAGTACCAAACCTTGCTTTCTTATGAT
    GATGTTGAGTTGGAATTTGACGACGAAGCCCTTCAAGAGATTGCTAATAAAGCAATCGAA
    CGGAAGACAGGGGCGCGTGGACTTCGCTCCATCATCGAAGAAACCATGCTAGATGTTATG
    TTTGAGGTGCCGAGTCAGGAAAATGTGAAATTGGTTCGCATCACTAAAGAAACTGTCGAT
    GGAACGGATAAACCGATCCTAGAAACAGCCTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1233

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SPV_1399 [new locus tag: SPV_RS07435 ]
  • symbol: ClpX
  • description: ATP-dependent Clp protease ATP-binding subunit ClpX
  • length: 410
  • theoretical pI: 4.45506
  • theoretical MW: 45798
  • GRAVY: -0.183659

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent Clp protease, ATP-binding subunit ClpX (TIGR00382; HMM-score: 635.9)
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent Clp protease, ATP-binding subunit ClpX (TIGR00382; HMM-score: 635.9)
    and 24 more
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent protease HslVU, ATPase subunit (TIGR00390; HMM-score: 215.6)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent Clp protease ATP-binding subunit ClpA (TIGR02639; HMM-score: 50.6)
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent chaperone protein ClpB (TIGR03346; HMM-score: 39.6)
    AAA family ATPase, CDC48 subfamily (TIGR01243; HMM-score: 34)
    Cellular processes Cellular processes Pathogenesis type VI secretion ATPase, ClpV1 family (TIGR03345; HMM-score: 32.3)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VI secretion ATPase, ClpV1 family (TIGR03345; HMM-score: 32.3)
    26S proteasome subunit P45 family (TIGR01242; HMM-score: 29.9)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair Holliday junction DNA helicase RuvB (TIGR00635; EC 3.6.4.12; HMM-score: 27.3)
    Cellular processes Cellular processes Cell division ATP-dependent metallopeptidase HflB (TIGR01241; EC 3.4.24.-; HMM-score: 24.1)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent metallopeptidase HflB (TIGR01241; EC 3.4.24.-; HMM-score: 24.1)
    Unknown function General Mg chelatase-like protein (TIGR00368; HMM-score: 21)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides endopeptidase La (TIGR00763; EC 3.4.21.53; HMM-score: 20.8)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides putative ATP-dependent protease (TIGR00764; HMM-score: 19)
    Cellular processes Cellular processes Other gas vesicle protein GvpN (TIGR02640; HMM-score: 19)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair orc1/cdc6 family replication initiation protein (TIGR02928; HMM-score: 18.3)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, subunit gamma and tau (TIGR02397; EC 2.7.7.7; HMM-score: 16.7)
    nicotinamide-nucleotide adenylyltransferase (TIGR01526; EC 2.7.7.1; HMM-score: 16.6)
    type IV secretion/conjugal transfer ATPase, VirB4 family (TIGR00929; HMM-score: 15.5)
    Cellular processes Cellular processes Conjugation P-type conjugative transfer ATPase TrbB (TIGR02782; HMM-score: 14.6)
    Cellular processes Cellular processes Chemotaxis and motility flagellar biosynthesis protein FlhF (TIGR03499; HMM-score: 14.5)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VII secretion AAA-ATPase EccA (TIGR03922; HMM-score: 14.3)
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA dimethylallyltransferase (TIGR00174; EC 2.5.1.75; HMM-score: 13.8)
    Hypothetical proteins Conserved TIGR00270 family protein (TIGR00270; HMM-score: 13.8)
    type-IV secretion system protein TraC (TIGR02746; HMM-score: 11.3)
  • TheSEED: data available for D39, Hungary19A-6, TIGR4
  • PFAM:
    P-loop_NTPase (CL0023) AAA_2; AAA domain (Cdc48 subfamily) (PF07724; HMM-score: 159.5)
    and 35 more
    AAA_lid (CL0671) ClpB_D2-small; C-terminal, D2-small domain, of ClpB protein (PF10431; HMM-score: 66)
    Zn_Beta_Ribbon (CL0167) zf-C4_ClpX; ClpX C4-type zinc finger (PF06689; HMM-score: 64.8)
    P-loop_NTPase (CL0023) AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 56)
    RuvB_N; Holliday junction DNA helicase RuvB P-loop domain (PF05496; HMM-score: 27.2)
    Mg_chelatase; Magnesium chelatase, subunit ChlI (PF01078; HMM-score: 25.8)
    AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 25.4)
    AAA_22; AAA domain (PF13401; HMM-score: 24.4)
    Sigma54_activat; Sigma-54 interaction domain (PF00158; HMM-score: 23.5)
    MCM; MCM P-loop domain (PF00493; HMM-score: 23.4)
    Sigma54_activ_2; Sigma-54 interaction domain (PF14532; HMM-score: 23.2)
    AAA_33; AAA domain (PF13671; HMM-score: 19.1)
    IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 18.6)
    AAA_18; AAA domain (PF13238; HMM-score: 18.5)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 18.4)
    AAA_7; P-loop containing dynein motor region (PF12775; HMM-score: 18.3)
    NACHT; NACHT domain (PF05729; HMM-score: 17.6)
    AAA_14; AAA domain (PF13173; HMM-score: 17.5)
    DEAD; DEAD/DEAH box helicase (PF00270; HMM-score: 15.9)
    TsaE; Threonylcarbamoyl adenosine biosynthesis protein TsaE (PF02367; HMM-score: 15.4)
    PhoH; PhoH-like protein (PF02562; HMM-score: 15.3)
    T2SSE; Type II/IV secretion system protein (PF00437; HMM-score: 14.8)
    AAA_29; P-loop containing region of AAA domain (PF13555; HMM-score: 14.3)
    PduV-EutP; Ethanolamine utilisation - propanediol utilisation (PF10662; HMM-score: 14.1)
    ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 13.9)
    AAA_17; AAA domain (PF13207; HMM-score: 13.9)
    RNA_helicase; RNA helicase (PF00910; HMM-score: 13.8)
    ABC_tran; ABC transporter (PF00005; HMM-score: 13.1)
    FtsK_SpoIIIE; FtsK/SpoIIIE family (PF01580; HMM-score: 13)
    BrxC_BrxD; BREX system ATP-binding protein BrxC/D (PF10923; HMM-score: 13)
    Zeta_toxin; Zeta toxin (PF06414; HMM-score: 12.8)
    SMC_N; RecF/RecN/SMC N terminal domain (PF02463; HMM-score: 12.3)
    Zn_Beta_Ribbon (CL0167) Zn-ribbon_8; Zinc ribbon domain (PF09723; HMM-score: 11.8)
    P-loop_NTPase (CL0023) AAA_8; P-loop containing dynein motor region D4 (PF12780; HMM-score: 11.7)
    AAA_23; AAA domain (PF13476; HMM-score: 11.5)
    no clan defined Gin; Inhibitor of sigma-G Gin (PF10764; HMM-score: 9.5)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.020885
    • TAT(Tat/SPI): 0.000366
    • LIPO(Sec/SPII): 0.00124
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: AVN86479 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MSTNRKNDMMVYCSFCGKNQEEVQKIIAGNNAFICNECVELAQEIIREELVEEVLADLSEVPKPIELLHILNHYVIGQDRAKRALAVAVYNHYKRINFHDTREESEDVDLQKSNILMIGPTGSGKTFLAQTLAKSLNVPFAIADATALTEAGYVGEDVENILLKLLQVADFNIERAERGIIYVDEIDKIAKKSENVSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQQEMIQVDTKNILFIVGGAFDGIEEIVKQRLGEKVIGFGQNNKAIDENSSYMQEIIAEDIQKFGIIPELIGRLPVFAALEQLTVDDLVRILKEPRNALVKQYQTLLSYDDVELEFDDEALQEIANKAIERKTGARGLRSIIEETMLDVMFEVPSQENVKLVRITKETVDGTDKPILETA

⊟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]

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