Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW40_RS18355 Genome accession   NZ_CP036009
Coordinates   3626794..3627573 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain BPN43/2     
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 3595248..3662284 3626794..3627573 within 0


Gene organization within MGE regions


Location: 3595248..3662284
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW40_RS18210 (EXW40_18585) dapA 3595312..3596190 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW40_RS18215 (EXW40_18590) dapG 3596202..3597434 (-) 1233 WP_033731191.1 aspartate kinase -
  EXW40_RS18220 (EXW40_18595) asd 3597458..3598504 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW40_RS18225 (EXW40_18600) dpaB 3598654..3599253 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW40_RS18230 (EXW40_18605) dpaA 3599250..3600152 (-) 903 WP_002088148.1 dipicolinic acid synthetase subunit A -
  EXW40_RS18235 (EXW40_18610) - 3600325..3600573 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW40_RS18240 (EXW40_18615) - 3600709..3601950 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW40_RS18245 (EXW40_18620) - 3602037..3602936 (-) 900 WP_215586774.1 polysaccharide deacetylase family protein -
  EXW40_RS18250 (EXW40_18625) pnp 3603091..3605244 (-) 2154 WP_215586775.1 polyribonucleotide nucleotidyltransferase -
  EXW40_RS18255 (EXW40_18630) rpsO 3605406..3605675 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW40_RS18260 (EXW40_18635) ribF 3605776..3606747 (-) 972 WP_061674409.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW40_RS18265 (EXW40_18640) truB 3606791..3607714 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW40_RS18270 (EXW40_18645) rbfA 3607805..3608161 (-) 357 WP_061674410.1 30S ribosome-binding factor RbfA -
  EXW40_RS18275 (EXW40_18650) - 3608177..3608458 (-) 282 WP_002088157.1 DUF503 family protein -
  EXW40_RS18280 (EXW40_18655) infB 3608455..3610521 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW40_RS18285 (EXW40_18660) - 3610526..3610837 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  EXW40_RS18290 (EXW40_18665) - 3610838..3611110 (-) 273 WP_002088161.1 YlxR family protein -
  EXW40_RS18295 (EXW40_18670) nusA 3611122..3612228 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW40_RS18300 (EXW40_18675) rimP 3612246..3612716 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW40_RS18305 (EXW40_18680) - 3613050..3617351 (-) 4302 WP_060749551.1 PolC-type DNA polymerase III -
  EXW40_RS18310 (EXW40_18685) - 3617476..3619176 (-) 1701 WP_061689346.1 proline--tRNA ligase -
  EXW40_RS18315 (EXW40_18690) rseP 3619286..3620542 (-) 1257 WP_061689345.1 RIP metalloprotease RseP -
  EXW40_RS18320 (EXW40_18695) dxr 3620560..3621702 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW40_RS18325 (EXW40_18700) cdsA 3621726..3622517 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW40_RS18330 (EXW40_18705) - 3622535..3623311 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW40_RS18335 (EXW40_18710) frr 3623397..3623954 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW40_RS18340 (EXW40_18715) pyrH 3623958..3624680 (-) 723 WP_002014544.1 UMP kinase -
  EXW40_RS18345 (EXW40_18720) tsf 3624747..3625634 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW40_RS18350 (EXW40_18725) rpsB 3625738..3626439 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  EXW40_RS18355 (EXW40_18730) codY 3626794..3627573 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW40_RS18360 (EXW40_18735) hslU 3627651..3629042 (-) 1392 WP_061674413.1 ATP-dependent protease ATPase subunit HslU -
  EXW40_RS18365 (EXW40_18740) hslV 3629065..3629607 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW40_RS18370 (EXW40_18745) xerC 3629651..3630550 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW40_RS18375 (EXW40_18750) trmFO 3630622..3631926 (-) 1305 WP_215586776.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW40_RS18380 (EXW40_18755) topA 3631975..3634053 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW40_RS18385 (EXW40_18760) dprA 3634198..3635067 (-) 870 WP_002014531.1 DNA-processing protein DprA -
  EXW40_RS18390 (EXW40_18765) sucD 3635156..3636058 (-) 903 WP_000115186.1 succinate--CoA ligase subunit alpha -
  EXW40_RS18395 (EXW40_18770) sucC 3636078..3637238 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW40_RS18400 (EXW40_18775) - 3637432..3638205 (-) 774 WP_215586777.1 ribonuclease HII -
  EXW40_RS18405 (EXW40_18780) ylqF 3638261..3639151 (-) 891 WP_002128821.1 ribosome biogenesis GTPase YlqF -
  EXW40_RS18410 (EXW40_18785) lepB 3639172..3639723 (-) 552 WP_002066791.1 signal peptidase I -
  EXW40_RS18415 (EXW40_18790) rplS 3639824..3640168 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW40_RS18420 (EXW40_18795) trmD 3640315..3641049 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW40_RS18425 (EXW40_18800) rimM 3641049..3641564 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW40_RS18430 (EXW40_18805) - 3641686..3641913 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW40_RS18435 (EXW40_18810) rpsP 3641928..3642200 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW40_RS18440 (EXW40_18815) ffh 3642301..3643650 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW40_RS18445 (EXW40_18820) - 3643663..3643995 (-) 333 WP_002033794.1 putative DNA-binding protein -
  EXW40_RS18450 (EXW40_18825) ftsY 3644128..3645117 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  EXW40_RS18455 (EXW40_18830) smc 3645132..3648701 (-) 3570 WP_215586778.1 chromosome segregation protein SMC -
  EXW40_RS18460 (EXW40_18835) rncS 3648850..3649587 (-) 738 WP_002033792.1 ribonuclease III -
  EXW40_RS18465 (EXW40_18840) acpP 3649646..3649879 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW40_RS18470 (EXW40_18845) fabG 3649949..3650689 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW40_RS18475 (EXW40_18850) fabD 3650689..3651633 (-) 945 WP_215586779.1 ACP S-malonyltransferase -
  EXW40_RS18480 (EXW40_18855) plsX 3651648..3652640 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW40_RS18485 (EXW40_18860) fapR 3652637..3653230 (-) 594 WP_000747354.1 transcription factor FapR -
  EXW40_RS18490 (EXW40_18865) recG 3653319..3655367 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW40_RS18495 (EXW40_18870) - 3655792..3657468 (-) 1677 WP_002014508.1 DAK2 domain-containing protein -
  EXW40_RS18500 (EXW40_18875) - 3657491..3657853 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW40_RS18505 (EXW40_18880) rpmB 3658232..3658420 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW40_RS18510 (EXW40_18885) spoVM 3658494..3658574 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW40_RS18515 (EXW40_18890) - 3658641..3659321 (-) 681 WP_061674419.1 thiamine diphosphokinase -
  EXW40_RS18520 (EXW40_18895) rpe 3659422..3660066 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW40_RS18525 (EXW40_18900) rsgA 3660069..3660950 (-) 882 WP_002033786.1 ribosome small subunit-dependent GTPase A -

Sequence

Protein


Download         Length: 259 a.a.        Molecular weight: 28774.99 Da        Isoelectric Point: 4.7251

>NTDB_id=345835 EXW40_RS18355 WP_002014541.1 3626794..3627573(-) (codY) [Bacillus mycoides strain BPN43/2]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=345835 EXW40_RS18355 WP_002014541.1 3626794..3627573(-) (codY) [Bacillus mycoides strain BPN43/2]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAGAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTGTTCGTTGTAAGTCGTCGCGGTAAATTATTAGGATATGCGATTC
ACCAACAAATCGAAAACGAACGTATGAAGCACATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACGCAAAGTTTATTC
AATGTTACAGAAACATCTTCAAATTTAGGTGTGGATAGTGACTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACACTAGTATTAGCTCGTCTTGGTCAAG
AGTTTTTAGACGATGATTTAATTCTTGCTGAATACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTAGGAATTACTC
GTTCGGTAATCGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTTATTGAGTCTCGCTCTTTAGGTATGAAAGGAACA
TACATTAAAGTGCTAAACGACAAGTTTCTACAGGAACTTGCTAAATTAAAAACAAACTAA

Domains

Predicted by InterproScan.

CodY helix-turn-helix domain (HTH_CodY)

(198-255)

CodY GAF-like domain (CodY)

(2-178)


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
  codY Bacillus subtilis subsp. subtilis str. 168

81.081

100

0.811
  codY Lactococcus lactis subsp. lactis strain DGCC12653

46.275

98.456

0.456

Multiple sequence alignment