Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpX   Type   Regulator
Locus tag   SI82_RS05460 Genome accession   NZ_CP010783
Coordinates   1103421..1104650 (-) Length   409 a.a.
NCBI ID   WP_003099812.1    Uniprot ID   -
Organism   Streptococcus iniae strain YSFST01-82     
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 1084062..1133053 1103421..1104650 within 0


Gene organization within MGE regions


Location: 1084062..1133053
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SI82_RS05350 (SI82_05350) - 1084062..1085216 (-) 1155 WP_003099772.1 ABC transporter ATP-binding protein -
  SI82_RS05355 (SI82_05355) murB 1085251..1086144 (-) 894 WP_003099774.1 UDP-N-acetylmuramate dehydrogenase -
  SI82_RS05360 (SI82_05360) - 1086399..1087565 (+) 1167 WP_003099776.1 IS30 family transposase -
  SI82_RS05365 (SI82_05365) folK 1087817..1088308 (-) 492 WP_003099778.1 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase -
  SI82_RS05370 (SI82_05370) folB 1088305..1088664 (-) 360 WP_003099779.1 dihydroneopterin aldolase -
  SI82_RS05375 (SI82_05375) folP 1088671..1089471 (-) 801 WP_003099781.1 dihydropteroate synthase -
  SI82_RS05380 (SI82_05380) folE 1089481..1090044 (-) 564 WP_003099782.1 GTP cyclohydrolase I FolE -
  SI82_RS05385 (SI82_05385) - 1090073..1091332 (-) 1260 WP_003099784.1 folylpolyglutamate synthase/dihydrofolate synthase family protein -
  SI82_RS05390 (SI82_05390) thrB 1091416..1092276 (-) 861 WP_003099786.1 homoserine kinase -
  SI82_RS05395 (SI82_05395) - 1092278..1093564 (-) 1287 WP_003099788.1 homoserine dehydrogenase -
  SI82_RS05400 (SI82_05400) - 1093749..1094669 (+) 921 WP_003099793.1 polysaccharide deacetylase family protein -
  SI82_RS05405 (SI82_05405) - 1094929..1096104 (+) 1176 WP_003099056.1 IS256 family transposase -
  SI82_RS05420 (SI82_05420) tnpA 1097622..1098062 (-) 441 WP_003099798.1 IS200/IS605 family transposase -
  SI82_RS05425 (SI82_05425) rplL 1098285..1098650 (-) 366 WP_003099800.1 50S ribosomal protein L7/L12 -
  SI82_RS05430 (SI82_05430) rplJ 1098714..1099214 (-) 501 WP_003099802.1 50S ribosomal protein L10 -
  SI82_RS05435 (SI82_05435) - 1099478..1100431 (-) 954 WP_003098612.1 IS30 family transposase -
  SI82_RS10285 - 1100577..1101919 (-) 1343 Protein_1007 IS3 family transposase -
  SI82_RS05450 (SI82_05450) - 1101991..1102704 (-) 714 WP_003099809.1 hypothetical protein -
  SI82_RS05455 (SI82_05455) yihA 1102812..1103411 (-) 600 WP_003099810.1 ribosome biogenesis GTP-binding protein YihA/YsxC -
  SI82_RS05460 (SI82_05460) clpX 1103421..1104650 (-) 1230 WP_003099812.1 ATP-dependent Clp protease ATP-binding subunit ClpX Regulator
  SI82_RS05465 (SI82_05465) - 1104875..1105372 (-) 498 WP_003099817.1 dihydrofolate reductase -
  SI82_RS05470 (SI82_05470) - 1105451..1106290 (-) 840 WP_017794807.1 thymidylate synthase -
  SI82_RS05475 (SI82_05475) - 1106486..1107658 (+) 1173 WP_003099823.1 hydroxymethylglutaryl-CoA synthase -
  SI82_RS05480 (SI82_05480) - 1107648..1108925 (+) 1278 WP_003099827.1 hydroxymethylglutaryl-CoA reductase, degradative -
  SI82_RS05485 (SI82_05485) fni 1108949..1109944 (-) 996 WP_003099830.1 type 2 isopentenyl-diphosphate Delta-isomerase -
  SI82_RS05490 (SI82_05490) - 1109925..1110944 (-) 1020 WP_003099834.1 phosphomevalonate kinase -
  SI82_RS05495 (SI82_05495) mvaD 1110937..1111881 (-) 945 WP_003099837.1 diphosphomevalonate decarboxylase -
  SI82_RS05500 (SI82_05500) mvk 1111857..1112741 (-) 885 WP_003099844.1 mevalonate kinase -
  SI82_RS05505 (SI82_05505) - 1112872..1114614 (-) 1743 WP_003099847.1 ABC transporter ATP-binding protein -
  SI82_RS05510 (SI82_05510) - 1114616..1116337 (-) 1722 WP_003099849.1 ABC transporter ATP-binding protein -
  SI82_RS05515 (SI82_05515) - 1116913..1118943 (+) 2031 WP_003099850.1 5'-nucleotidase C-terminal domain-containing protein -
  SI82_RS05520 (SI82_05520) - 1118979..1119389 (-) 411 WP_003099851.1 peptide deformylase -
  SI82_RS05525 (SI82_05525) gdhA 1119469..1120818 (-) 1350 WP_003099852.1 NADP-specific glutamate dehydrogenase -
  SI82_RS05530 (SI82_05530) - 1120952..1122719 (-) 1768 Protein_1024 ABC transporter ATP-binding protein -
  SI82_RS05535 (SI82_05535) - 1122719..1124461 (-) 1743 WP_003099854.1 ABC transporter ATP-binding protein -
  SI82_RS05540 (SI82_05540) - 1124563..1125042 (-) 480 WP_003099856.1 GNAT family N-acetyltransferase -
  SI82_RS05545 (SI82_05545) - 1125044..1126930 (-) 1887 WP_003099861.1 ABC-F family ATP-binding cassette domain-containing protein -
  SI82_RS05550 (SI82_05550) - 1126927..1128135 (-) 1209 WP_003099863.1 CCA tRNA nucleotidyltransferase -
  SI82_RS05555 (SI82_05555) dapB 1128132..1128899 (-) 768 WP_003099866.1 4-hydroxy-tetrahydrodipicolinate reductase -
  SI82_RS05560 (SI82_05560) - 1128916..1129767 (-) 852 WP_003099869.1 DegV family protein -
  SI82_RS05565 (SI82_05565) - 1129767..1130147 (-) 381 WP_003099871.1 DUF1149 family protein -
  SI82_RS05570 (SI82_05570) - 1130220..1130741 (-) 522 WP_003099873.1 hypothetical protein -
  SI82_RS05575 (SI82_05575) tnpA 1130938..1131411 (+) 474 WP_003099875.1 IS200/IS605 family transposase -
  SI82_RS05580 (SI82_05580) - 1131550..1132314 (-) 765 WP_003099876.1 glycoside hydrolase family 73 protein -
  SI82_RS05585 (SI82_05585) - 1132439..1133053 (-) 615 WP_003099878.1 glycoside hydrolase family 73 protein -

Sequence

Protein


Download         Length: 409 a.a.        Molecular weight: 45151.78 Da        Isoelectric Point: 4.4847

>NTDB_id=139780 SI82_RS05460 WP_003099812.1 1103421..1104650(-) (clpX) [Streptococcus iniae strain YSFST01-82]
MAVNRTNDIKVHCSFCGKDQDEVKKIIAGNNVFICDECVALSQEIIKEELAEEVLADLTEVPKPKELLDILNQYVVGQDH
AKKALAVAVYNHYKRVSFTESRDEDEVELQKSNILMIGPTGSGKTFLAQTLAKSLNVPFAIADATSLTEAGYVGEDVENI
LLKLIQAADYNVERAERGIIYVDEIDKIAKKGENVSITRDVSGEGVQQALLKIIEGTEASVPPQGGRKHPNQEMIQIDTK
NILFIVGGAFDGIEEIVKQRLGEKIIGFGQNSRKIDEDASYMQEIIAEDIQKFGLIPEFIGRLPVVAALEQLTVADLIQI
LTEPRNALVKQYQALLSYDGVELEFEKAALEAIAAKAIERKTGARGLRSIIEETMLDIMFEIPSQEDVIKVRITKDSVDG
LKKPILETA

Nucleotide


Download         Length: 1230 bp        

>NTDB_id=139780 SI82_RS05460 WP_003099812.1 1103421..1104650(-) (clpX) [Streptococcus iniae strain YSFST01-82]
ATGGCAGTTAATCGTACAAACGATATTAAGGTCCATTGTTCATTTTGTGGCAAGGACCAAGATGAAGTTAAAAAAATTAT
TGCAGGGAACAATGTTTTCATCTGTGATGAATGTGTTGCATTATCTCAAGAAATTATAAAAGAAGAATTAGCAGAGGAAG
TATTAGCTGATTTAACGGAAGTTCCAAAACCAAAAGAACTTTTAGATATTTTAAATCAATATGTTGTTGGTCAAGACCAT
GCTAAAAAGGCTTTAGCAGTAGCAGTTTATAACCATTATAAGCGTGTTTCGTTTACAGAAAGTCGCGATGAAGATGAAGT
GGAATTGCAAAAGTCAAATATTCTCATGATTGGCCCAACTGGTTCAGGAAAAACCTTCTTGGCACAAACTTTGGCAAAAA
GTTTAAATGTACCATTTGCCATTGCGGATGCTACTTCATTAACTGAAGCTGGCTATGTCGGCGAAGATGTTGAGAATATT
CTGCTAAAATTAATTCAAGCAGCTGATTATAATGTAGAACGTGCAGAACGTGGCATTATTTATGTTGATGAAATTGATAA
AATTGCTAAAAAAGGGGAAAATGTTTCCATTACACGCGATGTCTCTGGTGAAGGTGTTCAACAAGCCCTGCTAAAAATTA
TTGAAGGCACAGAAGCAAGTGTTCCACCTCAAGGTGGACGTAAACACCCTAATCAAGAGATGATTCAAATTGATACGAAA
AATATTTTGTTCATCGTTGGTGGCGCTTTTGATGGCATTGAAGAAATTGTTAAACAGCGTCTTGGAGAAAAAATTATTGG
TTTTGGCCAAAATAGCCGTAAAATTGATGAAGATGCTTCATATATGCAAGAAATTATCGCAGAAGACATTCAAAAATTTG
GCCTTATTCCAGAATTTATTGGACGCTTACCTGTTGTTGCAGCCTTAGAACAGTTAACAGTTGCTGACCTGATTCAAATT
TTAACAGAACCAAGAAATGCTCTTGTTAAACAATACCAAGCTCTTTTATCTTATGATGGTGTTGAACTTGAATTTGAAAA
GGCTGCTTTGGAAGCTATTGCTGCAAAAGCTATAGAACGTAAAACTGGTGCGCGTGGCCTTCGTTCAATCATTGAAGAAA
CCATGCTTGACATTATGTTTGAAATCCCTAGTCAAGAAGATGTTATTAAGGTTCGCATTACTAAGGACTCTGTGGATGGG
CTTAAAAAACCTATTTTGGAAACGGCATAA

Domains

Predicted by InterproScan.

ClpX C4-type zinc finger (zf-C4_ClpX)

(12-48)

AAA domain (Cdc48 subfamily) (AAA_2)

(110-305)

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

(312-388)


Secondary structure

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



3D structure

Source ID Structure

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

87.775

100

0.878
  clpX Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

57.895

97.555

0.565

Multiple sequence alignment