Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW42_RS22695 Genome accession   NZ_CP036137
Coordinates   4466949..4467728 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain JAS85/1     
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 4435426..4502438 4466949..4467728 within 0


Gene organization within MGE regions


Location: 4435426..4502438
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW42_RS22550 (EXW42_23105) dapA 4435490..4436368 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW42_RS22555 (EXW42_23110) dapG 4436380..4437612 (-) 1233 WP_033731191.1 aspartate kinase -
  EXW42_RS22560 (EXW42_23115) asd 4437636..4438682 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW42_RS22565 (EXW42_23120) dpaB 4438832..4439431 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW42_RS22570 (EXW42_23125) dpaA 4439428..4440330 (-) 903 WP_002088148.1 dipicolinic acid synthetase subunit A -
  EXW42_RS22575 (EXW42_23130) - 4440503..4440751 (-) 249 WP_050000361.1 YlmC/YmxH family sporulation protein -
  EXW42_RS22580 (EXW42_23135) - 4440887..4442128 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW42_RS22585 (EXW42_23140) - 4442215..4443114 (-) 900 WP_215577319.1 polysaccharide deacetylase family protein -
  EXW42_RS22590 (EXW42_23145) pnp 4443269..4445422 (-) 2154 WP_002033682.1 polyribonucleotide nucleotidyltransferase -
  EXW42_RS22595 (EXW42_23150) rpsO 4445584..4445853 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW42_RS22600 (EXW42_23155) ribF 4445954..4446925 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW42_RS22605 (EXW42_23160) truB 4446969..4447892 (-) 924 WP_078206256.1 tRNA pseudouridine(55) synthase TruB -
  EXW42_RS22610 (EXW42_23165) rbfA 4447983..4448339 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  EXW42_RS22615 (EXW42_23170) - 4448355..4448636 (-) 282 WP_002088157.1 DUF503 domain-containing protein -
  EXW42_RS22620 (EXW42_23175) infB 4448633..4450699 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW42_RS22625 (EXW42_23180) - 4450704..4451015 (-) 312 WP_001286519.1 YlxQ family RNA-binding protein -
  EXW42_RS22630 (EXW42_23185) rnpM 4451016..4451288 (-) 273 WP_002088161.1 RNase P modulator RnpM -
  EXW42_RS22635 (EXW42_23190) nusA 4451300..4452406 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW42_RS22640 (EXW42_23195) rimP 4452424..4452894 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW42_RS22645 (EXW42_23200) - 4453228..4457529 (-) 4302 WP_215577320.1 PolC-type DNA polymerase III -
  EXW42_RS22650 (EXW42_23205) - 4457654..4459354 (-) 1701 WP_002128803.1 proline--tRNA ligase -
  EXW42_RS22655 (EXW42_23210) rseP 4459464..4460720 (-) 1257 WP_113936801.1 RIP metalloprotease RseP -
  EXW42_RS22660 (EXW42_23215) dxr 4460738..4461880 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW42_RS22665 (EXW42_23220) cdsA 4461904..4462695 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW42_RS22670 (EXW42_23225) - 4462713..4463489 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW42_RS22675 (EXW42_23230) frr 4463575..4464132 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW42_RS22680 (EXW42_23235) pyrH 4464136..4464858 (-) 723 WP_002014544.1 UMP kinase -
  EXW42_RS22685 (EXW42_23240) tsf 4464925..4465812 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW42_RS22690 (EXW42_23245) rpsB 4465895..4466596 (-) 702 WP_002185070.1 30S ribosomal protein S2 -
  EXW42_RS22695 (EXW42_23250) codY 4466949..4467728 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW42_RS22700 (EXW42_23255) hslU 4467806..4469197 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW42_RS22705 (EXW42_23260) hslV 4469220..4469762 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW42_RS22710 (EXW42_23265) xerC 4469805..4470704 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW42_RS22715 (EXW42_23270) trmFO 4470776..4472080 (-) 1305 WP_002066796.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW42_RS22720 (EXW42_23275) topA 4472129..4474207 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW42_RS22725 (EXW42_23280) dprA 4474352..4475221 (-) 870 WP_002167750.1 DNA-processing protein DprA -
  EXW42_RS22730 (EXW42_23285) sucD 4475310..4476212 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW42_RS22735 (EXW42_23290) sucC 4476232..4477392 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW42_RS22740 (EXW42_23295) - 4477586..4478359 (-) 774 WP_002014527.1 ribonuclease HII -
  EXW42_RS22745 (EXW42_23300) ylqF 4478415..4479305 (-) 891 WP_002128821.1 ribosome biogenesis GTPase YlqF -
  EXW42_RS22750 (EXW42_23305) lepB 4479326..4479877 (-) 552 WP_002066791.1 signal peptidase I -
  EXW42_RS22755 (EXW42_23310) rplS 4479978..4480322 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW42_RS22760 (EXW42_23315) trmD 4480469..4481203 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW42_RS22765 (EXW42_23320) rimM 4481203..4481718 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW42_RS22770 (EXW42_23325) - 4481840..4482067 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW42_RS22775 (EXW42_23330) rpsP 4482082..4482354 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW42_RS22780 (EXW42_23335) ffh 4482455..4483804 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW42_RS22785 (EXW42_23340) - 4483817..4484149 (-) 333 WP_000891061.1 putative DNA-binding protein -
  EXW42_RS22790 (EXW42_23345) ftsY 4484282..4485271 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  EXW42_RS22795 (EXW42_23350) smc 4485286..4488855 (-) 3570 WP_002014517.1 chromosome segregation protein SMC -
  EXW42_RS22800 (EXW42_23355) rncS 4489004..4489741 (-) 738 WP_002033792.1 ribonuclease III -
  EXW42_RS22805 (EXW42_23360) acpP 4489800..4490033 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW42_RS22810 (EXW42_23365) fabG 4490103..4490843 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW42_RS22815 (EXW42_23370) fabD 4490843..4491787 (-) 945 WP_002128825.1 ACP S-malonyltransferase -
  EXW42_RS22820 (EXW42_23375) plsX 4491802..4492794 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW42_RS22825 (EXW42_23380) fapR 4492791..4493384 (-) 594 WP_000747354.1 transcription factor FapR -
  EXW42_RS22830 (EXW42_23385) recG 4493473..4495521 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW42_RS22835 (EXW42_23390) - 4495946..4497622 (-) 1677 WP_002128829.1 DAK2 domain-containing protein -
  EXW42_RS22840 (EXW42_23395) - 4497645..4498007 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW42_RS22845 (EXW42_23400) rpmB 4498386..4498574 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW42_RS22850 (EXW42_23405) spoVM 4498648..4498728 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW42_RS22855 (EXW42_23410) - 4498795..4499475 (-) 681 WP_215577321.1 thiamine diphosphokinase -
  EXW42_RS22860 (EXW42_23415) rpe 4499576..4500220 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW42_RS22865 (EXW42_23420) rsgA 4500223..4501104 (-) 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=347091 EXW42_RS22695 WP_002014541.1 4466949..4467728(-) (codY) [Bacillus mycoides strain JAS85/1]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=347091 EXW42_RS22695 WP_002014541.1 4466949..4467728(-) (codY) [Bacillus mycoides strain JAS85/1]
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