Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW59_RS23810 Genome accession   NZ_CP036084
Coordinates   3790860..3791639 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain JAS1004     
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 3759314..3826349 3790860..3791639 within 0


Gene organization within MGE regions


Location: 3759314..3826349
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW59_RS23665 (EXW59_24220) dapA 3759378..3760256 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW59_RS23670 (EXW59_24225) dapG 3760268..3761500 (-) 1233 WP_033731191.1 aspartate kinase -
  EXW59_RS23675 (EXW59_24230) asd 3761524..3762570 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW59_RS23680 (EXW59_24235) dpaB 3762720..3763319 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW59_RS23685 (EXW59_24240) dpaA 3763316..3764218 (-) 903 WP_098636007.1 dipicolinic acid synthetase subunit A -
  EXW59_RS23690 (EXW59_24245) - 3764391..3764639 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW59_RS23695 (EXW59_24250) - 3764775..3766016 (-) 1242 WP_085312221.1 pitrilysin family protein -
  EXW59_RS23700 (EXW59_24255) - 3766103..3767002 (-) 900 WP_002033683.1 polysaccharide deacetylase family protein -
  EXW59_RS23705 (EXW59_24260) pnp 3767157..3769310 (-) 2154 WP_002033682.1 polyribonucleotide nucleotidyltransferase -
  EXW59_RS23710 (EXW59_24265) rpsO 3769472..3769741 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW59_RS23715 (EXW59_24270) ribF 3769842..3770813 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW59_RS23720 (EXW59_24275) truB 3770857..3771780 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW59_RS23725 (EXW59_24280) rbfA 3771871..3772227 (-) 357 WP_061674410.1 30S ribosome-binding factor RbfA -
  EXW59_RS23730 (EXW59_24285) - 3772243..3772524 (-) 282 WP_002088157.1 DUF503 family protein -
  EXW59_RS23735 (EXW59_24290) infB 3772521..3774587 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW59_RS23740 (EXW59_24295) - 3774592..3774903 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  EXW59_RS23745 (EXW59_24300) - 3774904..3775176 (-) 273 WP_002088161.1 YlxR family protein -
  EXW59_RS23750 (EXW59_24305) nusA 3775188..3776294 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW59_RS23755 (EXW59_24310) rimP 3776312..3776782 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW59_RS23760 (EXW59_24315) - 3777116..3781417 (-) 4302 WP_002033677.1 PolC-type DNA polymerase III -
  EXW59_RS23765 (EXW59_24320) - 3781542..3783242 (-) 1701 WP_078175371.1 proline--tRNA ligase -
  EXW59_RS23770 (EXW59_24325) rseP 3783352..3784608 (-) 1257 WP_002088169.1 RIP metalloprotease RseP -
  EXW59_RS23775 (EXW59_24330) dxr 3784626..3785768 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW59_RS23780 (EXW59_24335) cdsA 3785792..3786583 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW59_RS23785 (EXW59_24340) - 3786601..3787377 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW59_RS23790 (EXW59_24345) frr 3787463..3788020 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW59_RS23795 (EXW59_24350) pyrH 3788024..3788746 (-) 723 WP_002014544.1 UMP kinase -
  EXW59_RS23800 (EXW59_24355) tsf 3788813..3789700 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW59_RS23805 (EXW59_24360) rpsB 3789804..3790505 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  EXW59_RS23810 (EXW59_24365) codY 3790860..3791639 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW59_RS23815 (EXW59_24370) hslU 3791717..3793108 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW59_RS23820 (EXW59_24375) hslV 3793131..3793673 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW59_RS23825 (EXW59_24380) xerC 3793716..3794615 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW59_RS23830 (EXW59_24385) trmFO 3794687..3795991 (-) 1305 WP_002014534.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW59_RS23835 (EXW59_24390) topA 3796040..3798118 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW59_RS23840 (EXW59_24395) dprA 3798263..3799132 (-) 870 WP_098636006.1 DNA-processing protein DprA -
  EXW59_RS23845 (EXW59_24400) sucD 3799221..3800123 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW59_RS23850 (EXW59_24405) sucC 3800143..3801303 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW59_RS23855 (EXW59_24410) - 3801497..3802270 (-) 774 WP_098636005.1 ribonuclease HII -
  EXW59_RS23860 (EXW59_24415) ylqF 3802326..3803216 (-) 891 WP_002014526.1 ribosome biogenesis GTPase YlqF -
  EXW59_RS23865 (EXW59_24420) lepB 3803237..3803788 (-) 552 WP_002066791.1 signal peptidase I -
  EXW59_RS23870 (EXW59_24425) rplS 3803889..3804233 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW59_RS23875 (EXW59_24430) trmD 3804380..3805114 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW59_RS23880 (EXW59_24435) rimM 3805114..3805629 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW59_RS23885 (EXW59_24440) - 3805751..3805978 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW59_RS23890 (EXW59_24445) rpsP 3805993..3806265 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW59_RS23895 (EXW59_24450) ffh 3806366..3807715 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW59_RS23900 (EXW59_24455) - 3807728..3808060 (-) 333 WP_002033794.1 putative DNA-binding protein -
  EXW59_RS23905 (EXW59_24460) ftsY 3808193..3809182 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  EXW59_RS23910 (EXW59_24465) smc 3809197..3812766 (-) 3570 WP_016100714.1 chromosome segregation protein SMC -
  EXW59_RS23915 (EXW59_24470) rncS 3812915..3813652 (-) 738 WP_002033792.1 ribonuclease III -
  EXW59_RS23920 (EXW59_24475) acpP 3813711..3813944 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW59_RS23925 (EXW59_24480) fabG 3814014..3814754 (-) 741 WP_002165156.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW59_RS23930 (EXW59_24485) fabD 3814754..3815698 (-) 945 WP_098636004.1 ACP S-malonyltransferase -
  EXW59_RS23935 (EXW59_24490) plsX 3815713..3816705 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW59_RS23940 (EXW59_24495) fapR 3816702..3817295 (-) 594 WP_000747354.1 transcription factor FapR -
  EXW59_RS23945 (EXW59_24500) recG 3817384..3819432 (-) 2049 WP_016100712.1 ATP-dependent DNA helicase RecG -
  EXW59_RS23950 (EXW59_24505) - 3819857..3821533 (-) 1677 WP_002014508.1 DAK2 domain-containing protein -
  EXW59_RS23955 (EXW59_24510) - 3821556..3821918 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW59_RS23960 (EXW59_24515) rpmB 3822297..3822485 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW59_RS23965 (EXW59_24520) spoVM 3822559..3822639 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW59_RS23970 (EXW59_24525) - 3822706..3823386 (-) 681 WP_133116684.1 thiamine diphosphokinase -
  EXW59_RS23975 (EXW59_24530) rpe 3823487..3824131 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW59_RS23980 (EXW59_24535) rsgA 3824134..3825015 (-) 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=346535 EXW59_RS23810 WP_002014541.1 3790860..3791639(-) (codY) [Bacillus mycoides strain JAS1004]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346535 EXW59_RS23810 WP_002014541.1 3790860..3791639(-) (codY) [Bacillus mycoides strain JAS1004]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAGAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTGTTCGTTGTAAGTCGTCGCGGTAAATTATTAGGATATGCGATTC
ACCAACAAATCGAAAACGAACGTATGAAGCACATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACGCAAAGTTTATTC
AATGTTACAGAAACATCTTCAAATTTAGGTGTGGATAGTGACTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACACTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATTCTTGCTGAATACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
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