Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW44_RS17870 Genome accession   NZ_CP036057
Coordinates   3533038..3533817 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain JAS06/1     
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 3501514..3568531 3533038..3533817 within 0


Gene organization within MGE regions


Location: 3501514..3568531
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW44_RS17725 (EXW44_17955) dapA 3501578..3502456 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW44_RS17730 (EXW44_17960) dapG 3502468..3503700 (-) 1233 WP_002088068.1 aspartate kinase -
  EXW44_RS17735 (EXW44_17965) asd 3503724..3504770 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW44_RS17740 (EXW44_17970) dpaB 3504920..3505519 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW44_RS17745 (EXW44_17975) dpaA 3505516..3506418 (-) 903 WP_002128797.1 dipicolinic acid synthetase subunit A -
  EXW44_RS17750 (EXW44_17980) - 3506591..3506839 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW44_RS17755 (EXW44_17985) - 3506975..3508216 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW44_RS17760 (EXW44_17990) - 3508303..3509202 (-) 900 WP_002128798.1 polysaccharide deacetylase family protein -
  EXW44_RS17765 (EXW44_17995) pnp 3509357..3511510 (-) 2154 WP_002128799.1 polyribonucleotide nucleotidyltransferase -
  EXW44_RS17770 (EXW44_18000) rpsO 3511672..3511941 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW44_RS17775 (EXW44_18005) ribF 3512042..3513013 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW44_RS17780 (EXW44_18010) truB 3513057..3513980 (-) 924 WP_215563592.1 tRNA pseudouridine(55) synthase TruB -
  EXW44_RS17785 (EXW44_18015) rbfA 3514071..3514427 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  EXW44_RS17790 (EXW44_18020) - 3514443..3514724 (-) 282 WP_002088157.1 DUF503 domain-containing protein -
  EXW44_RS17795 (EXW44_18025) infB 3514721..3516787 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW44_RS17800 (EXW44_18030) - 3516792..3517103 (-) 312 WP_001286519.1 YlxQ family RNA-binding protein -
  EXW44_RS17805 (EXW44_18035) rnpM 3517104..3517376 (-) 273 WP_002088161.1 RNase P modulator RnpM -
  EXW44_RS17810 (EXW44_18040) nusA 3517388..3518494 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW44_RS17815 (EXW44_18045) rimP 3518512..3518982 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW44_RS17820 (EXW44_18050) - 3519316..3523617 (-) 4302 WP_002185075.1 PolC-type DNA polymerase III -
  EXW44_RS17825 (EXW44_18055) - 3523742..3525442 (-) 1701 WP_002128803.1 proline--tRNA ligase -
  EXW44_RS17830 (EXW44_18060) rseP 3525552..3526808 (-) 1257 WP_002088169.1 RIP metalloprotease RseP -
  EXW44_RS17835 (EXW44_18065) dxr 3526826..3527968 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW44_RS17840 (EXW44_18070) cdsA 3527992..3528783 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW44_RS17845 (EXW44_18075) uppS 3528801..3529577 (-) 777 WP_033731196.1 isoprenyl transferase -
  EXW44_RS17850 (EXW44_18080) frr 3529663..3530220 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW44_RS17855 (EXW44_18085) pyrH 3530224..3530946 (-) 723 WP_002014544.1 UMP kinase -
  EXW44_RS17860 (EXW44_18090) tsf 3531013..3531900 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW44_RS17865 (EXW44_18095) rpsB 3531983..3532684 (-) 702 WP_002185070.1 30S ribosomal protein S2 -
  EXW44_RS17870 (EXW44_18100) codY 3533038..3533817 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW44_RS17875 (EXW44_18105) hslU 3533895..3535286 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW44_RS17880 (EXW44_18110) hslV 3535309..3535851 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW44_RS17885 (EXW44_18115) xerC 3535894..3536793 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW44_RS17890 (EXW44_18120) trmFO 3536865..3538169 (-) 1305 WP_002066796.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW44_RS17895 (EXW44_18125) topA 3538218..3540296 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW44_RS17900 (EXW44_18130) dprA 3540441..3541310 (-) 870 WP_002167750.1 DNA-processing protein DprA -
  EXW44_RS17905 (EXW44_18135) sucD 3541399..3542301 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW44_RS17910 (EXW44_18140) sucC 3542321..3543481 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW44_RS17915 (EXW44_18145) - 3543675..3544448 (-) 774 WP_002142917.1 ribonuclease HII -
  EXW44_RS17920 (EXW44_18150) ylqF 3544504..3545394 (-) 891 WP_002128821.1 ribosome biogenesis GTPase YlqF -
  EXW44_RS17925 (EXW44_18155) lepB 3545415..3545966 (-) 552 WP_002066791.1 signal peptidase I -
  EXW44_RS17930 (EXW44_18160) rplS 3546067..3546411 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW44_RS17935 (EXW44_18165) trmD 3546558..3547292 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW44_RS17940 (EXW44_18170) rimM 3547292..3547807 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW44_RS17945 (EXW44_18175) - 3547929..3548156 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW44_RS17950 (EXW44_18180) rpsP 3548171..3548443 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW44_RS17955 (EXW44_18185) ffh 3548544..3549893 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW44_RS17960 (EXW44_18190) - 3549906..3550238 (-) 333 WP_215563593.1 putative DNA-binding protein -
  EXW44_RS17965 (EXW44_18195) ftsY 3550371..3551360 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  EXW44_RS17970 (EXW44_18200) smc 3551375..3554944 (-) 3570 WP_002014517.1 chromosome segregation protein SMC -
  EXW44_RS17975 (EXW44_18205) rncS 3555093..3555830 (-) 738 WP_002033792.1 ribonuclease III -
  EXW44_RS17980 (EXW44_18210) acpP 3555889..3556122 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW44_RS17985 (EXW44_18215) fabG 3556192..3556932 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW44_RS17990 (EXW44_18220) fabD 3556932..3557876 (-) 945 WP_002128825.1 ACP S-malonyltransferase -
  EXW44_RS17995 (EXW44_18225) plsX 3557891..3558883 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW44_RS18000 (EXW44_18230) fapR 3558880..3559473 (-) 594 WP_002185063.1 transcription factor FapR -
  EXW44_RS18005 (EXW44_18235) recG 3559562..3561610 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW44_RS18010 (EXW44_18240) - 3562035..3563711 (-) 1677 WP_215563594.1 DAK2 domain-containing protein -
  EXW44_RS18015 (EXW44_18245) - 3563734..3564096 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW44_RS18020 (EXW44_18250) rpmB 3564475..3564663 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW44_RS18025 (EXW44_18255) spoVM 3564737..3564817 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW44_RS18030 (EXW44_18260) - 3564884..3565564 (-) 681 WP_002014506.1 thiamine diphosphokinase -
  EXW44_RS18035 (EXW44_18265) rpe 3565669..3566313 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW44_RS18040 (EXW44_18270) rsgA 3566316..3567197 (-) 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=346332 EXW44_RS17870 WP_002014541.1 3533038..3533817(-) (codY) [Bacillus mycoides strain JAS06/1]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346332 EXW44_RS17870 WP_002014541.1 3533038..3533817(-) (codY) [Bacillus mycoides strain JAS06/1]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAGAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTGTTCGTTGTAAGTCGTCGCGGTAAATTATTAGGATATGCGATTC
ACCAACAAATCGAAAACGAACGTATGAAGCACATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACGCAAAGTTTATTC
AATGTTACAGAAACATCTTCAAATTTAGGTGTGGATAGTGACTACACAGCATTCCCGGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACACTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATTCTTGCTGAATACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTGGGAATTACTC
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