Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW50_RS18780 Genome accession   NZ_CP036040
Coordinates   3708574..3709353 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain BPN573     
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 3677028..3744063 3708574..3709353 within 0


Gene organization within MGE regions


Location: 3677028..3744063
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW50_RS18635 (EXW50_19070) dapA 3677092..3677970 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW50_RS18640 (EXW50_19075) dapG 3677982..3679214 (-) 1233 WP_033731191.1 aspartate kinase -
  EXW50_RS18645 (EXW50_19080) asd 3679238..3680284 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW50_RS18650 (EXW50_19085) dpaB 3680434..3681033 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW50_RS18655 (EXW50_19090) dpaA 3681030..3681932 (-) 903 WP_002088148.1 dipicolinic acid synthetase subunit A -
  EXW50_RS18660 (EXW50_19095) - 3682105..3682353 (-) 249 WP_050000361.1 YlmC/YmxH family sporulation protein -
  EXW50_RS18665 (EXW50_19100) - 3682489..3683730 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW50_RS18670 (EXW50_19105) - 3683817..3684716 (-) 900 WP_215551797.1 polysaccharide deacetylase family protein -
  EXW50_RS18675 (EXW50_19110) pnp 3684871..3687024 (-) 2154 WP_002033682.1 polyribonucleotide nucleotidyltransferase -
  EXW50_RS18680 (EXW50_19115) rpsO 3687186..3687455 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW50_RS18685 (EXW50_19120) ribF 3687556..3688527 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW50_RS18690 (EXW50_19125) truB 3688571..3689494 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW50_RS18695 (EXW50_19130) rbfA 3689585..3689941 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  EXW50_RS18700 (EXW50_19135) - 3689957..3690238 (-) 282 WP_063219178.1 DUF503 domain-containing protein -
  EXW50_RS18705 (EXW50_19140) infB 3690235..3692301 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW50_RS18710 (EXW50_19145) - 3692306..3692617 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  EXW50_RS18715 (EXW50_19150) rnpM 3692618..3692890 (-) 273 WP_002088161.1 RNase P modulator RnpM -
  EXW50_RS18720 (EXW50_19155) nusA 3692902..3694008 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW50_RS18725 (EXW50_19160) rimP 3694026..3694496 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW50_RS18730 (EXW50_19165) - 3694830..3699131 (-) 4302 WP_002033677.1 PolC-type DNA polymerase III -
  EXW50_RS18735 (EXW50_19170) - 3699256..3700956 (-) 1701 WP_078175371.1 proline--tRNA ligase -
  EXW50_RS18740 (EXW50_19175) rseP 3701066..3702322 (-) 1257 WP_002088169.1 RIP metalloprotease RseP -
  EXW50_RS18745 (EXW50_19180) dxr 3702340..3703482 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW50_RS18750 (EXW50_19185) cdsA 3703506..3704297 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW50_RS18755 (EXW50_19190) - 3704315..3705091 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW50_RS18760 (EXW50_19195) frr 3705177..3705734 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW50_RS18765 (EXW50_19200) pyrH 3705738..3706460 (-) 723 WP_002014544.1 UMP kinase -
  EXW50_RS18770 (EXW50_19205) tsf 3706527..3707414 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW50_RS18775 (EXW50_19210) rpsB 3707518..3708219 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  EXW50_RS18780 (EXW50_19215) codY 3708574..3709353 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW50_RS18785 (EXW50_19220) hslU 3709431..3710822 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW50_RS18790 (EXW50_19225) hslV 3710845..3711387 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW50_RS18795 (EXW50_19230) xerC 3711430..3712329 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW50_RS18800 (EXW50_19235) trmFO 3712401..3713705 (-) 1305 WP_215551796.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW50_RS18805 (EXW50_19240) topA 3713754..3715832 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW50_RS18810 (EXW50_19245) dprA 3715977..3716846 (-) 870 WP_215551795.1 DNA-processing protein DprA -
  EXW50_RS18815 (EXW50_19250) sucD 3716935..3717837 (-) 903 WP_000115186.1 succinate--CoA ligase subunit alpha -
  EXW50_RS18820 (EXW50_19255) sucC 3717857..3719017 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW50_RS18825 (EXW50_19260) - 3719211..3719984 (-) 774 WP_215551794.1 ribonuclease HII -
  EXW50_RS18830 (EXW50_19265) ylqF 3720040..3720930 (-) 891 WP_002033795.1 ribosome biogenesis GTPase YlqF -
  EXW50_RS18835 (EXW50_19270) lepB 3720951..3721502 (-) 552 WP_002066791.1 signal peptidase I -
  EXW50_RS18840 (EXW50_19275) rplS 3721603..3721947 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW50_RS18845 (EXW50_19280) trmD 3722094..3722828 (-) 735 WP_215551793.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW50_RS18850 (EXW50_19285) rimM 3722828..3723343 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW50_RS18855 (EXW50_19290) - 3723465..3723692 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW50_RS18860 (EXW50_19295) rpsP 3723707..3723979 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW50_RS18865 (EXW50_19300) ffh 3724080..3725429 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW50_RS18870 (EXW50_19305) - 3725442..3725774 (-) 333 WP_002033794.1 putative DNA-binding protein -
  EXW50_RS18875 (EXW50_19310) ftsY 3725907..3726896 (-) 990 WP_002185064.1 signal recognition particle-docking protein FtsY -
  EXW50_RS18880 (EXW50_19315) smc 3726911..3730480 (-) 3570 WP_215551792.1 chromosome segregation protein SMC -
  EXW50_RS18885 (EXW50_19320) rncS 3730629..3731366 (-) 738 WP_002033792.1 ribonuclease III -
  EXW50_RS18890 (EXW50_19325) acpP 3731425..3731658 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW50_RS18895 (EXW50_19330) fabG 3731728..3732468 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW50_RS18900 (EXW50_19335) fabD 3732468..3733412 (-) 945 WP_215551791.1 ACP S-malonyltransferase -
  EXW50_RS18905 (EXW50_19340) plsX 3733427..3734419 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW50_RS18910 (EXW50_19345) fapR 3734416..3735009 (-) 594 WP_000747354.1 transcription factor FapR -
  EXW50_RS18915 (EXW50_19350) recG 3735098..3737146 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW50_RS18920 (EXW50_19355) - 3737571..3739247 (-) 1677 WP_215551790.1 DAK2 domain-containing protein -
  EXW50_RS18925 (EXW50_19360) - 3739270..3739632 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW50_RS18930 (EXW50_19365) rpmB 3740011..3740199 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW50_RS18935 (EXW50_19370) spoVM 3740273..3740353 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW50_RS18940 (EXW50_19375) - 3740420..3741100 (-) 681 WP_002014506.1 thiamine diphosphokinase -
  EXW50_RS18945 (EXW50_19380) rpe 3741201..3741845 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW50_RS18950 (EXW50_19385) rsgA 3741848..3742729 (-) 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=346136 EXW50_RS18780 WP_002014541.1 3708574..3709353(-) (codY) [Bacillus mycoides strain BPN573]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346136 EXW50_RS18780 WP_002014541.1 3708574..3709353(-) (codY) [Bacillus mycoides strain BPN573]
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