Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW54_RS18820 Genome accession   NZ_CP036094
Coordinates   3772171..3772950 (-) Length   259 a.a.
NCBI ID   WP_000421291.1    Uniprot ID   A0A1V6LJD3
Organism   Bacillus toyonensis strain JAS22/1     
Function   repression of comK (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)
ICE 3746881..3808688 3772171..3772950 within 0


Gene organization within MGE regions


Location: 3746881..3808688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW54_RS18710 (EXW54_19180) - 3747451..3748350 (-) 900 WP_000868234.1 polysaccharide deacetylase family protein -
  EXW54_RS18715 (EXW54_19185) pnp 3748502..3750640 (-) 2139 WP_000076735.1 polyribonucleotide nucleotidyltransferase -
  EXW54_RS18720 (EXW54_19190) rpsO 3750801..3751070 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW54_RS18725 (EXW54_19195) ribF 3751171..3752142 (-) 972 WP_000766713.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW54_RS18730 (EXW54_19200) truB 3752186..3753109 (-) 924 WP_000399360.1 tRNA pseudouridine(55) synthase TruB -
  EXW54_RS18735 (EXW54_19205) rbfA 3753195..3753551 (-) 357 WP_000776439.1 30S ribosome-binding factor RbfA -
  EXW54_RS18740 (EXW54_19210) - 3753567..3753848 (-) 282 WP_000582364.1 DUF503 family protein -
  EXW54_RS18745 (EXW54_19215) infB 3753845..3755905 (-) 2061 WP_000036352.1 translation initiation factor IF-2 -
  EXW54_RS18750 (EXW54_19220) - 3755910..3756221 (-) 312 WP_001286525.1 YlxQ family RNA-binding protein -
  EXW54_RS18755 (EXW54_19225) - 3756222..3756494 (-) 273 WP_000071127.1 YlxR family protein -
  EXW54_RS18760 (EXW54_19230) nusA 3756506..3757612 (-) 1107 WP_000102596.1 transcription termination factor NusA -
  EXW54_RS18765 (EXW54_19235) rimP 3757630..3758100 (-) 471 WP_000359095.1 ribosome maturation factor RimP -
  EXW54_RS18770 (EXW54_19240) - 3758434..3762735 (-) 4302 WP_098623710.1 PolC-type DNA polymerase III -
  EXW54_RS18775 (EXW54_19245) - 3762860..3764560 (-) 1701 WP_000814325.1 proline--tRNA ligase -
  EXW54_RS18780 (EXW54_19250) rseP 3764670..3765926 (-) 1257 WP_001090232.1 RIP metalloprotease RseP -
  EXW54_RS18785 (EXW54_19255) dxr 3765944..3767086 (-) 1143 WP_098811997.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW54_RS18790 (EXW54_19260) cdsA 3767110..3767901 (-) 792 WP_000813595.1 phosphatidate cytidylyltransferase -
  EXW54_RS18795 (EXW54_19265) uppS 3767919..3768695 (-) 777 WP_000971308.1 isoprenyl transferase -
  EXW54_RS18800 (EXW54_19270) frr 3768781..3769338 (-) 558 WP_000531505.1 ribosome recycling factor -
  EXW54_RS18805 (EXW54_19275) pyrH 3769341..3770063 (-) 723 WP_000042662.1 UMP kinase -
  EXW54_RS18810 (EXW54_19280) tsf 3770130..3771017 (-) 888 WP_001018579.1 translation elongation factor Ts -
  EXW54_RS18815 (EXW54_19285) rpsB 3771121..3771822 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  EXW54_RS18820 (EXW54_19290) codY 3772171..3772950 (-) 780 WP_000421291.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW54_RS18825 (EXW54_19295) hslU 3773028..3774419 (-) 1392 WP_000550076.1 ATP-dependent protease ATPase subunit HslU -
  EXW54_RS18830 (EXW54_19300) hslV 3774442..3774984 (-) 543 WP_000526274.1 ATP-dependent protease proteolytic subunit HslV -
  EXW54_RS18835 (EXW54_19305) xerC 3775027..3775926 (-) 900 WP_001101240.1 tyrosine recombinase XerC -
  EXW54_RS18840 (EXW54_19310) trmFO 3775992..3777296 (-) 1305 WP_000212000.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW54_RS18845 (EXW54_19315) topA 3777345..3779423 (-) 2079 WP_001286961.1 type I DNA topoisomerase -
  EXW54_RS18850 (EXW54_19320) dprA 3779568..3780437 (-) 870 WP_000818053.1 DNA-processing protein DprA -
  EXW54_RS18855 (EXW54_19325) sucD 3780526..3781428 (-) 903 WP_000115185.1 succinate--CoA ligase subunit alpha -
  EXW54_RS18860 (EXW54_19330) sucC 3781448..3782608 (-) 1161 WP_001020779.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW54_RS18865 (EXW54_19335) - 3782803..3783576 (-) 774 WP_001171132.1 ribonuclease HII -
  EXW54_RS18870 (EXW54_19340) ylqF 3783633..3784523 (-) 891 WP_000236689.1 ribosome biogenesis GTPase YlqF -
  EXW54_RS18875 (EXW54_19345) lepB 3784544..3785095 (-) 552 WP_000712442.1 signal peptidase I -
  EXW54_RS18880 (EXW54_19350) rplS 3785197..3785541 (-) 345 WP_001186517.1 50S ribosomal protein L19 -
  EXW54_RS18885 (EXW54_19355) trmD 3785688..3786422 (-) 735 WP_000686907.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW54_RS18890 (EXW54_19360) rimM 3786422..3786937 (-) 516 WP_000170280.1 ribosome maturation factor RimM -
  EXW54_RS18895 (EXW54_19365) - 3787059..3787286 (-) 228 WP_000737399.1 KH domain-containing protein -
  EXW54_RS18900 (EXW54_19370) rpsP 3787301..3787573 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW54_RS18905 (EXW54_19375) ffh 3787674..3789023 (-) 1350 WP_000863463.1 signal recognition particle protein -
  EXW54_RS18910 (EXW54_19380) - 3789036..3789368 (-) 333 WP_000891061.1 putative DNA-binding protein -
  EXW54_RS18915 (EXW54_19385) ftsY 3789502..3790491 (-) 990 WP_000007643.1 signal recognition particle-docking protein FtsY -
  EXW54_RS18920 (EXW54_19390) smc 3790506..3794075 (-) 3570 WP_000479010.1 chromosome segregation protein SMC -
  EXW54_RS18925 (EXW54_19395) rncS 3794222..3794959 (-) 738 WP_001146877.1 ribonuclease III -
  EXW54_RS18930 (EXW54_19400) acpP 3795019..3795252 (-) 234 WP_000786062.1 acyl carrier protein -
  EXW54_RS18935 (EXW54_19405) fabG 3795322..3796062 (-) 741 WP_000911780.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW54_RS18940 (EXW54_19410) fabD 3796062..3797006 (-) 945 WP_061529569.1 ACP S-malonyltransferase -
  EXW54_RS18945 (EXW54_19415) plsX 3797021..3798013 (-) 993 WP_000684090.1 phosphate acyltransferase PlsX -
  EXW54_RS18950 (EXW54_19420) fapR 3798010..3798603 (-) 594 WP_000747351.1 transcription factor FapR -
  EXW54_RS18955 (EXW54_19425) recG 3798692..3800740 (-) 2049 WP_098835214.1 ATP-dependent DNA helicase RecG -
  EXW54_RS18960 (EXW54_19430) - 3801030..3802706 (-) 1677 WP_097837483.1 DAK2 domain-containing protein -
  EXW54_RS18965 (EXW54_19435) - 3802729..3803091 (-) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  EXW54_RS18970 (EXW54_19440) rpmB 3803468..3803656 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW54_RS18975 (EXW54_19445) spoVM 3803730..3803810 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW54_RS18980 (EXW54_19450) - 3803877..3804557 (-) 681 WP_002039429.1 thiamine diphosphokinase -
  EXW54_RS18985 (EXW54_19455) rpe 3804658..3805302 (-) 645 WP_097837482.1 ribulose-phosphate 3-epimerase -
  EXW54_RS18990 (EXW54_19460) rsgA 3805305..3806186 (-) 882 WP_098623712.1 ribosome small subunit-dependent GTPase A -
  EXW54_RS18995 (EXW54_19465) prkC 3806456..3808429 (-) 1974 WP_000904738.1 serine/threonine protein kinase PrkC -

Sequence

Protein


Download         Length: 259 a.a.        Molecular weight: 28788.03 Da        Isoelectric Point: 4.7947

>NTDB_id=346685 EXW54_RS18820 WP_000421291.1 3772171..3772950(-) (codY) [Bacillus toyonensis strain JAS22/1]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NVTETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLHELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346685 EXW54_RS18820 WP_000421291.1 3772171..3772950(-) (codY) [Bacillus toyonensis strain JAS22/1]
ATGGAATTATTAGCAAAAACAAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAAAT
GTCTGATACAATGTGTGAAGTAATCGAAGCGAACGTATTCGTAGTAAGTCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAGAACGAGCGTATGAAACAAATGCTTGCAGAGCGTCAATTCCCAGAAGAATATACGCAAAGCTTATTC
AATGTAACGGAAACATCTTCAAACTTAGATGTAAACAGTGCTTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTGTTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATCCTTGCTGAATACAGTTCAACTGTAGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
TGAGCACATTTTCGAAGAGTTAAACGGAACAGAAGGTCTACTTGTTGCAAGTAAAATTGCTGATCGTGTAGGAATCACTC
GTTCTGTGATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATCGAGTCTCGTTCTTTAGGTATGAAAGGAACA
TACATTAAAGTATTAAACGACAAATTTTTACATGAACTTGCTAAATTAAAAACAAACTAA

Domains

Predicted by InterproScan.

CodY GAF-like domain (CodY)

(2-178)

CodY helix-turn-helix domain (HTH_CodY)

(198-255)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A1V6LJD3

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
  codY Bacillus subtilis subsp. subtilis str. 168

81.853

100

0.819
  codY Lactococcus lactis subsp. lactis strain DGCC12653

46.275

98.456

0.456

Multiple sequence alignment