Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW55_RS17550 Genome accession   NZ_CP036121
Coordinates   3471536..3472315 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain JAS635     
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 3435101..3489954 3471536..3472315 within 0


Gene organization within MGE regions


Location: 3435101..3489954
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW55_RS17365 (EXW55_17680) - 3435957..3436907 (-) 951 WP_060749537.1 DnaD domain protein -
  EXW55_RS17370 (EXW55_17685) - 3437186..3437470 (-) 285 WP_002088134.1 hypothetical protein -
  EXW55_RS17375 (EXW55_17690) - 3437654..3437875 (-) 222 WP_002165166.1 hypothetical protein -
  EXW55_RS17380 (EXW55_17695) - 3437889..3438476 (-) 588 WP_060749540.1 hypothetical protein -
  EXW55_RS17385 (EXW55_17700) - 3438567..3438815 (-) 249 WP_215596103.1 hypothetical protein -
  EXW55_RS17390 (EXW55_17705) - 3438866..3439057 (-) 192 WP_234710264.1 helix-turn-helix transcriptional regulator -
  EXW55_RS17395 (EXW55_17710) - 3439202..3439591 (+) 390 WP_016127488.1 helix-turn-helix transcriptional regulator -
  EXW55_RS17400 (EXW55_17715) - 3439740..3440414 (+) 675 WP_016127489.1 hypothetical protein -
  EXW55_RS17405 (EXW55_17720) - 3440423..3441163 (-) 741 WP_098564997.1 hypothetical protein -
  EXW55_RS17410 (EXW55_17725) - 3441363..3441887 (+) 525 WP_215596104.1 ImmA/IrrE family metallo-endopeptidase -
  EXW55_RS17415 (EXW55_17730) - 3441990..3443537 (+) 1548 WP_215596105.1 recombinase family protein -
  EXW55_RS17420 (EXW55_17735) dpaB 3443570..3443995 (-) 426 Protein_3474 dipicolinate synthase subunit B -
  EXW55_RS17425 (EXW55_17740) dpaA 3443992..3444894 (-) 903 WP_098636007.1 dipicolinic acid synthetase subunit A -
  EXW55_RS17430 (EXW55_17745) - 3445067..3445315 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW55_RS17435 (EXW55_17750) - 3445451..3446692 (-) 1242 WP_085312221.1 pitrilysin family protein -
  EXW55_RS17440 (EXW55_17755) - 3446779..3447678 (-) 900 WP_002033683.1 polysaccharide deacetylase family protein -
  EXW55_RS17445 (EXW55_17760) pnp 3447833..3449986 (-) 2154 WP_002033682.1 polyribonucleotide nucleotidyltransferase -
  EXW55_RS17450 (EXW55_17765) rpsO 3450148..3450417 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW55_RS17455 (EXW55_17770) ribF 3450518..3451489 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW55_RS17460 (EXW55_17775) truB 3451533..3452456 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW55_RS17465 (EXW55_17780) rbfA 3452547..3452903 (-) 357 WP_061674410.1 30S ribosome-binding factor RbfA -
  EXW55_RS17470 (EXW55_17785) - 3452919..3453200 (-) 282 WP_002088157.1 DUF503 family protein -
  EXW55_RS17475 (EXW55_17790) infB 3453197..3455263 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW55_RS17480 (EXW55_17795) - 3455268..3455579 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  EXW55_RS17485 (EXW55_17800) - 3455580..3455852 (-) 273 WP_002088161.1 YlxR family protein -
  EXW55_RS17490 (EXW55_17805) nusA 3455864..3456970 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW55_RS17495 (EXW55_17810) rimP 3456988..3457458 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW55_RS17500 (EXW55_17815) - 3457792..3462093 (-) 4302 WP_002033677.1 PolC-type DNA polymerase III -
  EXW55_RS17505 (EXW55_17820) - 3462218..3463918 (-) 1701 WP_078175371.1 proline--tRNA ligase -
  EXW55_RS17510 (EXW55_17825) rseP 3464028..3465284 (-) 1257 WP_002088169.1 RIP metalloprotease RseP -
  EXW55_RS17515 (EXW55_17830) dxr 3465302..3466444 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW55_RS17520 (EXW55_17835) cdsA 3466468..3467259 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW55_RS17525 (EXW55_17840) - 3467277..3468053 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW55_RS17530 (EXW55_17845) frr 3468139..3468696 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW55_RS17535 (EXW55_17850) pyrH 3468700..3469422 (-) 723 WP_002014544.1 UMP kinase -
  EXW55_RS17540 (EXW55_17855) tsf 3469489..3470376 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW55_RS17545 (EXW55_17860) rpsB 3470480..3471181 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  EXW55_RS17550 (EXW55_17865) codY 3471536..3472315 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW55_RS17555 (EXW55_17870) hslU 3472393..3473784 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW55_RS17560 (EXW55_17875) hslV 3473807..3474349 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW55_RS17565 (EXW55_17880) xerC 3474392..3475291 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW55_RS17570 (EXW55_17885) trmFO 3475363..3476667 (-) 1305 WP_002014534.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW55_RS17575 (EXW55_17890) topA 3476716..3478794 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW55_RS17580 (EXW55_17895) dprA 3478939..3479808 (-) 870 WP_098636006.1 DNA-processing protein DprA -
  EXW55_RS17585 (EXW55_17900) sucD 3479897..3480799 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW55_RS17590 (EXW55_17905) sucC 3480819..3481979 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW55_RS17595 (EXW55_17910) - 3482173..3482946 (-) 774 WP_098636005.1 ribonuclease HII -
  EXW55_RS17600 (EXW55_17915) ylqF 3483002..3483892 (-) 891 WP_002014526.1 ribosome biogenesis GTPase YlqF -
  EXW55_RS17605 (EXW55_17920) lepB 3483913..3484464 (-) 552 WP_002066791.1 signal peptidase I -
  EXW55_RS17610 (EXW55_17925) rplS 3484565..3484909 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW55_RS17615 (EXW55_17930) trmD 3485056..3485790 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW55_RS17620 (EXW55_17935) rimM 3485790..3486305 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW55_RS17625 (EXW55_17940) - 3486427..3486654 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW55_RS17630 (EXW55_17945) rpsP 3486669..3486941 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW55_RS17635 (EXW55_17950) ffh 3487042..3488391 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW55_RS17640 (EXW55_17955) - 3488404..3488736 (-) 333 WP_002033794.1 putative DNA-binding protein -
  EXW55_RS17645 (EXW55_17960) ftsY 3488869..3489858 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -

Sequence

Protein


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

>NTDB_id=346975 EXW55_RS17550 WP_002014541.1 3471536..3472315(-) (codY) [Bacillus mycoides strain JAS635]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346975 EXW55_RS17550 WP_002014541.1 3471536..3472315(-) (codY) [Bacillus mycoides strain JAS635]
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