Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW52_RS18815 Genome accession   NZ_CP036017
Coordinates   3713472..3714251 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain BPN51/1     
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 3681926..3748961 3713472..3714251 within 0


Gene organization within MGE regions


Location: 3681926..3748961
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW52_RS18670 (EXW52_19070) dapA 3681990..3682868 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW52_RS18675 (EXW52_19075) dapG 3682880..3684112 (-) 1233 WP_002088068.1 aspartate kinase -
  EXW52_RS18680 (EXW52_19080) asd 3684136..3685182 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW52_RS18685 (EXW52_19085) dpaB 3685332..3685931 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW52_RS18690 (EXW52_19090) dpaA 3685928..3686830 (-) 903 WP_002088148.1 dipicolinic acid synthetase subunit A -
  EXW52_RS18695 (EXW52_19095) - 3687003..3687251 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW52_RS18700 (EXW52_19100) - 3687387..3688628 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW52_RS18705 (EXW52_19105) - 3688715..3689614 (-) 900 WP_002128798.1 polysaccharide deacetylase family protein -
  EXW52_RS18710 (EXW52_19110) pnp 3689769..3691922 (-) 2154 WP_002033682.1 polyribonucleotide nucleotidyltransferase -
  EXW52_RS18715 (EXW52_19115) rpsO 3692084..3692353 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW52_RS18720 (EXW52_19120) ribF 3692454..3693425 (-) 972 WP_061689347.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW52_RS18725 (EXW52_19125) truB 3693469..3694392 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW52_RS18730 (EXW52_19130) rbfA 3694483..3694839 (-) 357 WP_061674410.1 30S ribosome-binding factor RbfA -
  EXW52_RS18735 (EXW52_19135) - 3694855..3695136 (-) 282 WP_002088157.1 DUF503 domain-containing protein -
  EXW52_RS18740 (EXW52_19140) infB 3695133..3697199 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW52_RS18745 (EXW52_19145) - 3697204..3697515 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  EXW52_RS18750 (EXW52_19150) rnpM 3697516..3697788 (-) 273 WP_002088161.1 RNase P modulator RnpM -
  EXW52_RS18755 (EXW52_19155) nusA 3697800..3698906 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW52_RS18760 (EXW52_19160) rimP 3698924..3699394 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW52_RS18765 (EXW52_19165) - 3699728..3704029 (-) 4302 WP_060749551.1 PolC-type DNA polymerase III -
  EXW52_RS18770 (EXW52_19170) - 3704154..3705854 (-) 1701 WP_061689346.1 proline--tRNA ligase -
  EXW52_RS18775 (EXW52_19175) rseP 3705964..3707220 (-) 1257 WP_061689345.1 RIP metalloprotease RseP -
  EXW52_RS18780 (EXW52_19180) dxr 3707238..3708380 (-) 1143 WP_215600656.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW52_RS18785 (EXW52_19185) cdsA 3708404..3709195 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW52_RS18790 (EXW52_19190) - 3709213..3709989 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW52_RS18795 (EXW52_19195) frr 3710075..3710632 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW52_RS18800 (EXW52_19200) pyrH 3710636..3711358 (-) 723 WP_002014544.1 UMP kinase -
  EXW52_RS18805 (EXW52_19205) tsf 3711425..3712312 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW52_RS18810 (EXW52_19210) rpsB 3712416..3713117 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  EXW52_RS18815 (EXW52_19215) codY 3713472..3714251 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW52_RS18820 (EXW52_19220) hslU 3714329..3715720 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW52_RS18825 (EXW52_19225) hslV 3715743..3716285 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW52_RS18830 (EXW52_19230) xerC 3716328..3717227 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW52_RS18835 (EXW52_19235) trmFO 3717299..3718603 (-) 1305 WP_002014534.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW52_RS18840 (EXW52_19240) topA 3718652..3720730 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW52_RS18845 (EXW52_19245) dprA 3720875..3721744 (-) 870 WP_215600657.1 DNA-processing protein DprA -
  EXW52_RS18850 (EXW52_19250) sucD 3721833..3722735 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW52_RS18855 (EXW52_19255) sucC 3722755..3723915 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW52_RS18860 (EXW52_19260) - 3724109..3724882 (-) 774 WP_061674415.1 ribonuclease HII -
  EXW52_RS18865 (EXW52_19265) ylqF 3724938..3725828 (-) 891 WP_061689344.1 ribosome biogenesis GTPase YlqF -
  EXW52_RS18870 (EXW52_19270) lepB 3725849..3726400 (-) 552 WP_002066791.1 signal peptidase I -
  EXW52_RS18875 (EXW52_19275) rplS 3726501..3726845 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW52_RS18880 (EXW52_19280) trmD 3726992..3727726 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW52_RS18885 (EXW52_19285) rimM 3727726..3728241 (-) 516 WP_061689343.1 ribosome maturation factor RimM -
  EXW52_RS18890 (EXW52_19290) - 3728363..3728590 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW52_RS18895 (EXW52_19295) rpsP 3728605..3728877 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW52_RS18900 (EXW52_19300) ffh 3728978..3730327 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW52_RS18905 (EXW52_19305) - 3730340..3730672 (-) 333 WP_002033794.1 putative DNA-binding protein -
  EXW52_RS18910 (EXW52_19310) ftsY 3730805..3731794 (-) 990 WP_215600658.1 signal recognition particle-docking protein FtsY -
  EXW52_RS18915 (EXW52_19315) smc 3731809..3735378 (-) 3570 WP_016100714.1 chromosome segregation protein SMC -
  EXW52_RS18920 (EXW52_19320) rncS 3735527..3736264 (-) 738 WP_002033792.1 ribonuclease III -
  EXW52_RS18925 (EXW52_19325) acpP 3736323..3736556 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW52_RS18930 (EXW52_19330) fabG 3736626..3737366 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW52_RS18935 (EXW52_19335) fabD 3737366..3738310 (-) 945 WP_215600659.1 ACP S-malonyltransferase -
  EXW52_RS18940 (EXW52_19340) plsX 3738325..3739317 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW52_RS18945 (EXW52_19345) fapR 3739314..3739907 (-) 594 WP_000747354.1 transcription factor FapR -
  EXW52_RS18950 (EXW52_19350) recG 3739996..3742044 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW52_RS18955 (EXW52_19355) - 3742469..3744145 (-) 1677 WP_002014508.1 DAK2 domain-containing protein -
  EXW52_RS18960 (EXW52_19360) - 3744168..3744530 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW52_RS18965 (EXW52_19365) rpmB 3744909..3745097 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW52_RS18970 (EXW52_19370) spoVM 3745171..3745251 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW52_RS18975 (EXW52_19375) - 3745318..3745998 (-) 681 WP_002066782.1 thiamine diphosphokinase -
  EXW52_RS18980 (EXW52_19380) rpe 3746099..3746743 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW52_RS18985 (EXW52_19385) rsgA 3746746..3747627 (-) 882 WP_215600660.1 ribosome small subunit-dependent GTPase A -

Sequence

Protein


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

>NTDB_id=345935 EXW52_RS18815 WP_002014541.1 3713472..3714251(-) (codY) [Bacillus mycoides strain BPN51/1]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=345935 EXW52_RS18815 WP_002014541.1 3713472..3714251(-) (codY) [Bacillus mycoides strain BPN51/1]
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