Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpX   Type   Regulator
Locus tag   DQM95_RS04365 Genome accession   NZ_LS483397
Coordinates   804085..805314 (+) Length   409 a.a.
NCBI ID   WP_012658290.1    Uniprot ID   A0A2X4EFJ3
Organism   Streptococcus uberis strain NCTC3858     
Function   require for competence development (predicted from homology)   
Competence regulation

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 780099..813338 804085..805314 within 0


Gene organization within MGE regions


Location: 780099..813338
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DQM95_RS04250 (NCTC3858_00870) - 780099..780710 (+) 612 WP_012658268.1 glycoside hydrolase family 73 protein -
  DQM95_RS04255 (NCTC3858_00871) - 780836..781576 (+) 741 WP_012658269.1 glycoside hydrolase family 73 protein -
  DQM95_RS04260 (NCTC3858_00872) - 781633..782154 (+) 522 WP_012658270.1 hypothetical protein -
  DQM95_RS04265 (NCTC3858_00873) - 782228..782608 (+) 381 WP_012658271.1 DUF1149 family protein -
  DQM95_RS04270 (NCTC3858_00874) - 782608..783459 (+) 852 WP_012658272.1 DegV family protein -
  DQM95_RS04275 (NCTC3858_00875) dapB 783477..784244 (+) 768 WP_012658273.1 4-hydroxy-tetrahydrodipicolinate reductase -
  DQM95_RS04280 (NCTC3858_00876) - 784241..785452 (+) 1212 WP_046389270.1 CCA tRNA nucleotidyltransferase -
  DQM95_RS04285 (NCTC3858_00877) - 785445..787316 (+) 1872 WP_037592267.1 ABC-F family ATP-binding cassette domain-containing protein -
  DQM95_RS04290 (NCTC3858_00878) - 787322..787807 (+) 486 WP_012658276.1 GNAT family N-acetyltransferase -
  DQM95_RS04295 (NCTC3858_00879) - 787895..789640 (+) 1746 WP_111685949.1 ABC transporter ATP-binding protein -
  DQM95_RS04300 (NCTC3858_00880) - 789637..791406 (+) 1770 WP_037592266.1 ABC transporter ATP-binding protein -
  DQM95_RS04305 (NCTC3858_00881) gdhA 791529..792881 (+) 1353 WP_012658279.1 NADP-specific glutamate dehydrogenase -
  DQM95_RS04310 (NCTC3858_00882) - 792961..793371 (+) 411 WP_037592265.1 peptide deformylase -
  DQM95_RS04315 (NCTC3858_00883) - 793467..795548 (-) 2082 WP_046393417.1 bifunctional metallophosphatase/5'-nucleotidase -
  DQM95_RS04320 (NCTC3858_00884) mvk 795987..796865 (+) 879 WP_037592264.1 mevalonate kinase -
  DQM95_RS04325 (NCTC3858_00885) mvaD 796847..797791 (+) 945 WP_037592263.1 diphosphomevalonate decarboxylase -
  DQM95_RS04330 (NCTC3858_00886) - 797784..798788 (+) 1005 WP_037592262.1 phosphomevalonate kinase -
  DQM95_RS04335 (NCTC3858_00887) fni 798785..799777 (+) 993 WP_012658284.1 type 2 isopentenyl-diphosphate Delta-isomerase -
  DQM95_RS04340 (NCTC3858_00888) - 799807..801093 (-) 1287 WP_046393419.1 hydroxymethylglutaryl-CoA reductase, degradative -
  DQM95_RS04345 (NCTC3858_00889) - 801080..802255 (-) 1176 WP_046393420.1 hydroxymethylglutaryl-CoA synthase -
  DQM95_RS04350 (NCTC3858_00890) - 802450..803289 (+) 840 WP_037592261.1 thymidylate synthase -
  DQM95_RS04355 (NCTC3858_00891) - 803369..803866 (+) 498 WP_012658288.1 dihydrofolate reductase -
  DQM95_RS04365 (NCTC3858_00893) clpX 804085..805314 (+) 1230 WP_012658290.1 ATP-dependent Clp protease ATP-binding subunit ClpX Regulator
  DQM95_RS04370 (NCTC3858_00894) yihA 805325..805924 (+) 600 WP_012658291.1 ribosome biogenesis GTP-binding protein YihA/YsxC -
  DQM95_RS04375 (NCTC3858_00895) - 806077..806799 (+) 723 WP_012658292.1 hypothetical protein -
  DQM95_RS04380 (NCTC3858_00896) - 806869..808971 (-) 2103 WP_012658293.1 AAA family ATPase -
  DQM95_RS04385 (NCTC3858_00898) rplJ 809372..809872 (+) 501 WP_012658294.1 50S ribosomal protein L10 -
  DQM95_RS04390 rplL 809938..810303 (+) 366 WP_012658295.1 50S ribosomal protein L7/L12 -
  DQM95_RS04395 (NCTC3858_00900) - 810564..810737 (+) 174 WP_001171244.1 hypothetical protein -
  DQM95_RS04400 (NCTC3858_00901) - 810734..811558 (+) 825 WP_003050356.1 replication initiator protein A -
  DQM95_RS04405 (NCTC3858_00903) dcm 811716..813338 (+) 1623 WP_111685950.1 DNA (cytosine-5-)-methyltransferase -

Sequence

Protein


Download         Length: 409 a.a.        Molecular weight: 45059.60 Da        Isoelectric Point: 4.4892

>NTDB_id=1140166 DQM95_RS04365 WP_012658290.1 804085..805314(+) (clpX) [Streptococcus uberis strain NCTC3858]
MAGNRSTDIKVHCSFCGKSQDEVKKIIAGNNVFICNECVLLSQEIIKEELAEEVLADLTEVPKPKELLDVLNQYVVGQDR
AKRALAVAVYNHYKRISFSESRDEEEVELQKSNILMIGPTGSGKTFLAQTLAKSLNVPFAIADATSLTEAGYVGEDVENI
LLKLIQAADYNVERAERGIIYVDEIDKIAKKGENVSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPNQEMIQIDTK
NILFIVGGAFDGIEEIVKQRLGEKIIGFGQNSRKIDEDASYMQEIISDDIQKFGLIPEFIGRLPVVAALEQLNIDDLIQI
LTVPKNALVKQYQALLSYDGVELSFDQDALEAIAAKAIERKTGARGLRSIIEETMLDIMFEIPSQEDVVKVRITKESVNG
DAKPILETA

Nucleotide


Download         Length: 1230 bp        

>NTDB_id=1140166 DQM95_RS04365 WP_012658290.1 804085..805314(+) (clpX) [Streptococcus uberis strain NCTC3858]
ATGGCAGGAAATAGAAGCACTGATATTAAGGTACATTGTTCATTTTGTGGTAAAAGCCAAGATGAAGTTAAAAAAATAAT
CGCAGGTAATAATGTTTTTATCTGTAATGAATGTGTTCTTTTATCACAAGAAATTATTAAAGAAGAGTTAGCAGAAGAAG
TCTTAGCTGATTTAACAGAAGTTCCAAAACCAAAGGAACTTTTAGATGTTTTAAACCAATATGTAGTCGGTCAGGACCGT
GCTAAAAGAGCATTGGCTGTTGCGGTTTACAATCATTATAAACGCATTTCATTTTCTGAAAGTCGTGATGAAGAGGAAGT
TGAATTGCAAAAATCAAACATCTTGATGATTGGGCCAACAGGATCTGGTAAGACCTTCTTAGCCCAAACCTTGGCAAAAA
GTTTAAATGTGCCTTTTGCCATTGCTGATGCAACATCATTAACAGAAGCAGGCTATGTCGGAGAAGATGTTGAAAATATT
TTGTTGAAACTTATCCAAGCTGCTGATTACAATGTTGAACGAGCAGAACGTGGTATTATTTACGTAGACGAAATAGACAA
AATTGCCAAAAAAGGTGAGAATGTCTCTATCACACGTGATGTATCAGGAGAAGGAGTTCAACAAGCCTTGTTGAAAATCA
TTGAAGGGACAGTTGCATCTGTTCCACCTCAAGGAGGCCGGAAACACCCTAATCAAGAGATGATTCAAATTGATACCAAA
AATATTTTATTTATCGTTGGCGGTGCTTTTGATGGCATTGAAGAAATTGTCAAACAGCGATTGGGTGAAAAAATCATTGG
CTTTGGTCAAAATTCCCGTAAGATTGATGAAGATGCTTCTTATATGCAAGAAATCATTTCTGATGATATTCAAAAATTCG
GTCTTATACCAGAATTCATTGGTCGCCTACCAGTTGTAGCTGCTTTAGAACAGCTCAACATAGATGACCTCATTCAAATT
TTGACAGTTCCGAAAAATGCTTTGGTTAAACAATATCAAGCCCTATTGTCATATGATGGTGTTGAATTGTCATTTGATCA
AGATGCTTTAGAAGCTATTGCGGCGAAAGCTATTGAAAGAAAAACAGGTGCGCGTGGTTTACGTTCCATTATTGAAGAAA
CCATGTTAGATATTATGTTTGAAATTCCTAGTCAGGAAGATGTAGTCAAAGTACGTATTACCAAGGAATCTGTCAATGGT
GACGCAAAACCGATTTTAGAAACAGCGTAG

Domains

Predicted by InterproScan.

ClpX C4-type zinc finger (zf-C4_ClpX)

(12-48)

C-terminal, D2-small domain, of ClpB protein (ClpB_D2-small)

(312-390)

AAA domain (Cdc48 subfamily) (AAA_2)

(110-305)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A2X4EFJ3

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  clpX Streptococcus mutans UA159

88.264

100

0.883
  clpX Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

58.603

98.044

0.575

Multiple sequence alignment