Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW47_RS18950 Genome accession   NZ_CP036099
Coordinates   3744118..3744897 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain JAS23/1     
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 3712594..3779607 3744118..3744897 within 0


Gene organization within MGE regions


Location: 3712594..3779607
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW47_RS18805 (EXW47_19150) dapA 3712658..3713536 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW47_RS18810 (EXW47_19155) dapG 3713548..3714780 (-) 1233 WP_033731191.1 aspartate kinase -
  EXW47_RS18815 (EXW47_19160) asd 3714804..3715850 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW47_RS18820 (EXW47_19165) dpaB 3716000..3716599 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW47_RS18825 (EXW47_19170) dpaA 3716596..3717498 (-) 903 WP_215560709.1 dipicolinic acid synthetase subunit A -
  EXW47_RS18830 (EXW47_19175) - 3717671..3717919 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW47_RS18835 (EXW47_19180) - 3718055..3719296 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW47_RS18840 (EXW47_19185) - 3719383..3720282 (-) 900 WP_002128798.1 polysaccharide deacetylase family protein -
  EXW47_RS18845 (EXW47_19190) pnp 3720437..3722590 (-) 2154 WP_002128799.1 polyribonucleotide nucleotidyltransferase -
  EXW47_RS18850 (EXW47_19195) rpsO 3722752..3723021 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW47_RS18855 (EXW47_19200) ribF 3723122..3724093 (-) 972 WP_215560710.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW47_RS18860 (EXW47_19205) truB 3724137..3725060 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW47_RS18865 (EXW47_19210) rbfA 3725151..3725507 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  EXW47_RS18870 (EXW47_19215) - 3725523..3725804 (-) 282 WP_002088157.1 DUF503 family protein -
  EXW47_RS18875 (EXW47_19220) infB 3725801..3727867 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW47_RS18880 (EXW47_19225) - 3727872..3728183 (-) 312 WP_001286519.1 YlxQ family RNA-binding protein -
  EXW47_RS18885 (EXW47_19230) - 3728184..3728456 (-) 273 WP_002088161.1 YlxR family protein -
  EXW47_RS18890 (EXW47_19235) nusA 3728468..3729574 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW47_RS18895 (EXW47_19240) rimP 3729592..3730062 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW47_RS18900 (EXW47_19245) - 3730396..3734697 (-) 4302 WP_215560711.1 PolC-type DNA polymerase III -
  EXW47_RS18905 (EXW47_19250) - 3734822..3736522 (-) 1701 WP_002128803.1 proline--tRNA ligase -
  EXW47_RS18910 (EXW47_19255) rseP 3736632..3737888 (-) 1257 WP_002088169.1 RIP metalloprotease RseP -
  EXW47_RS18915 (EXW47_19260) dxr 3737906..3739048 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW47_RS18920 (EXW47_19265) cdsA 3739072..3739863 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW47_RS18925 (EXW47_19270) - 3739881..3740657 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW47_RS18930 (EXW47_19275) frr 3740743..3741300 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW47_RS18935 (EXW47_19280) pyrH 3741304..3742026 (-) 723 WP_002014544.1 UMP kinase -
  EXW47_RS18940 (EXW47_19285) tsf 3742093..3742980 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW47_RS18945 (EXW47_19290) rpsB 3743063..3743764 (-) 702 WP_002185070.1 30S ribosomal protein S2 -
  EXW47_RS18950 (EXW47_19295) codY 3744118..3744897 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW47_RS18955 (EXW47_19300) hslU 3744975..3746366 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW47_RS18960 (EXW47_19305) hslV 3746389..3746931 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW47_RS18965 (EXW47_19310) xerC 3746974..3747873 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW47_RS18970 (EXW47_19315) trmFO 3747945..3749249 (-) 1305 WP_002066796.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW47_RS18975 (EXW47_19320) topA 3749298..3751376 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW47_RS18980 (EXW47_19325) dprA 3751521..3752390 (-) 870 WP_002167750.1 DNA-processing protein DprA -
  EXW47_RS18985 (EXW47_19330) sucD 3752479..3753381 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW47_RS18990 (EXW47_19335) sucC 3753401..3754561 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW47_RS18995 (EXW47_19340) - 3754755..3755528 (-) 774 WP_002014527.1 ribonuclease HII -
  EXW47_RS19000 (EXW47_19345) ylqF 3755584..3756474 (-) 891 WP_002128821.1 ribosome biogenesis GTPase YlqF -
  EXW47_RS19005 (EXW47_19350) lepB 3756495..3757046 (-) 552 WP_002066791.1 signal peptidase I -
  EXW47_RS19010 (EXW47_19355) rplS 3757147..3757491 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW47_RS19015 (EXW47_19360) trmD 3757638..3758372 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW47_RS19020 (EXW47_19365) rimM 3758372..3758887 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW47_RS19025 (EXW47_19370) - 3759009..3759236 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW47_RS19030 (EXW47_19375) rpsP 3759251..3759523 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW47_RS19035 (EXW47_19380) ffh 3759624..3760973 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW47_RS19040 (EXW47_19385) - 3760986..3761318 (-) 333 WP_000891061.1 putative DNA-binding protein -
  EXW47_RS19045 (EXW47_19390) ftsY 3761451..3762440 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  EXW47_RS19050 (EXW47_19395) smc 3762455..3766024 (-) 3570 WP_002014517.1 chromosome segregation protein SMC -
  EXW47_RS19055 (EXW47_19400) rncS 3766173..3766910 (-) 738 WP_002033792.1 ribonuclease III -
  EXW47_RS19060 (EXW47_19405) acpP 3766969..3767202 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW47_RS19065 (EXW47_19410) fabG 3767272..3768012 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW47_RS19070 (EXW47_19415) fabD 3768012..3768956 (-) 945 WP_002128825.1 ACP S-malonyltransferase -
  EXW47_RS19075 (EXW47_19420) plsX 3768971..3769963 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW47_RS19080 (EXW47_19425) fapR 3769960..3770553 (-) 594 WP_002185063.1 transcription factor FapR -
  EXW47_RS19085 (EXW47_19430) recG 3770642..3772690 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW47_RS19090 (EXW47_19435) - 3773115..3774791 (-) 1677 WP_002128829.1 DAK2 domain-containing protein -
  EXW47_RS19095 (EXW47_19440) - 3774814..3775176 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW47_RS19100 (EXW47_19445) rpmB 3775555..3775743 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW47_RS19105 (EXW47_19450) spoVM 3775817..3775897 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW47_RS19110 (EXW47_19455) - 3775964..3776644 (-) 681 WP_002014506.1 thiamine diphosphokinase -
  EXW47_RS19115 (EXW47_19460) rpe 3776745..3777389 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW47_RS19120 (EXW47_19465) rsgA 3777392..3778273 (-) 882 WP_002014503.1 ribosome small subunit-dependent GTPase A -

Sequence

Protein


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

>NTDB_id=346735 EXW47_RS18950 WP_002014541.1 3744118..3744897(-) (codY) [Bacillus mycoides strain JAS23/1]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346735 EXW47_RS18950 WP_002014541.1 3744118..3744897(-) (codY) [Bacillus mycoides strain JAS23/1]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAGAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTGTTCGTTGTAAGTCGTCGCGGTAAATTATTAGGATATGCGATTC
ACCAACAAATCGAAAACGAACGTATGAAGCACATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACGCAAAGTTTATTC
AATGTTACAGAAACATCTTCAAATTTAGGTGTGGATAGTGACTACACAGCATTCCCGGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACACTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATTCTTGCTGAATACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTCGGAATTACTC
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