Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW28_RS18655 Genome accession   NZ_CP036046
Coordinates   3673042..3673821 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain BPN601     
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 3641496..3708531 3673042..3673821 within 0


Gene organization within MGE regions


Location: 3641496..3708531
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW28_RS18510 (EXW28_18945) dapA 3641560..3642438 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW28_RS18515 (EXW28_18950) dapG 3642450..3643682 (-) 1233 WP_215584002.1 aspartate kinase -
  EXW28_RS18520 (EXW28_18955) asd 3643706..3644752 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW28_RS18525 (EXW28_18960) dpaB 3644902..3645501 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW28_RS18530 (EXW28_18965) dpaA 3645498..3646400 (-) 903 WP_002088148.1 dipicolinic acid synthetase subunit A -
  EXW28_RS18535 (EXW28_18970) - 3646573..3646821 (-) 249 WP_050000361.1 YlmC/YmxH family sporulation protein -
  EXW28_RS18540 (EXW28_18975) - 3646957..3648198 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW28_RS18545 (EXW28_18980) - 3648285..3649184 (-) 900 WP_215551797.1 polysaccharide deacetylase family protein -
  EXW28_RS18550 (EXW28_18985) pnp 3649339..3651492 (-) 2154 WP_002033682.1 polyribonucleotide nucleotidyltransferase -
  EXW28_RS18555 (EXW28_18990) rpsO 3651654..3651923 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW28_RS18560 (EXW28_18995) ribF 3652024..3652995 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW28_RS18565 (EXW28_19000) truB 3653039..3653962 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW28_RS18570 (EXW28_19005) rbfA 3654053..3654409 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  EXW28_RS18575 (EXW28_19010) - 3654425..3654706 (-) 282 WP_063219178.1 DUF503 family protein -
  EXW28_RS18580 (EXW28_19015) infB 3654703..3656769 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW28_RS18585 (EXW28_19020) - 3656774..3657085 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  EXW28_RS18590 (EXW28_19025) - 3657086..3657358 (-) 273 WP_002088161.1 YlxR family protein -
  EXW28_RS18595 (EXW28_19030) nusA 3657370..3658476 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW28_RS18600 (EXW28_19035) rimP 3658494..3658964 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW28_RS18605 (EXW28_19040) - 3659298..3663599 (-) 4302 WP_002033677.1 PolC-type DNA polymerase III -
  EXW28_RS18610 (EXW28_19045) - 3663724..3665424 (-) 1701 WP_078175371.1 proline--tRNA ligase -
  EXW28_RS18615 (EXW28_19050) rseP 3665534..3666790 (-) 1257 WP_002088169.1 RIP metalloprotease RseP -
  EXW28_RS18620 (EXW28_19055) dxr 3666808..3667950 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW28_RS18625 (EXW28_19060) cdsA 3667974..3668765 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW28_RS18630 (EXW28_19065) - 3668783..3669559 (-) 777 WP_002014545.1 isoprenyl transferase -
  EXW28_RS18635 (EXW28_19070) frr 3669645..3670202 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW28_RS18640 (EXW28_19075) pyrH 3670206..3670928 (-) 723 WP_002014544.1 UMP kinase -
  EXW28_RS18645 (EXW28_19080) tsf 3670995..3671882 (-) 888 WP_002088177.1 translation elongation factor Ts -
  EXW28_RS18650 (EXW28_19085) rpsB 3671986..3672687 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  EXW28_RS18655 (EXW28_19090) codY 3673042..3673821 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW28_RS18660 (EXW28_19095) hslU 3673899..3675290 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW28_RS18665 (EXW28_19100) hslV 3675313..3675855 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW28_RS18670 (EXW28_19105) xerC 3675898..3676797 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW28_RS18675 (EXW28_19110) trmFO 3676869..3678173 (-) 1305 WP_002014534.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW28_RS18680 (EXW28_19115) topA 3678222..3680300 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW28_RS18685 (EXW28_19120) dprA 3680445..3681314 (-) 870 WP_215551795.1 DNA-processing protein DprA -
  EXW28_RS18690 (EXW28_19125) sucD 3681403..3682305 (-) 903 WP_000115186.1 succinate--CoA ligase subunit alpha -
  EXW28_RS18695 (EXW28_19130) sucC 3682325..3683485 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW28_RS18700 (EXW28_19135) - 3683679..3684452 (-) 774 WP_215551794.1 ribonuclease HII -
  EXW28_RS18705 (EXW28_19140) ylqF 3684508..3685398 (-) 891 WP_002033795.1 ribosome biogenesis GTPase YlqF -
  EXW28_RS18710 (EXW28_19145) lepB 3685419..3685970 (-) 552 WP_002066791.1 signal peptidase I -
  EXW28_RS18715 (EXW28_19150) rplS 3686071..3686415 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  EXW28_RS18720 (EXW28_19155) trmD 3686562..3687296 (-) 735 WP_215551793.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW28_RS18725 (EXW28_19160) rimM 3687296..3687811 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW28_RS18730 (EXW28_19165) - 3687933..3688160 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW28_RS18735 (EXW28_19170) rpsP 3688175..3688447 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW28_RS18740 (EXW28_19175) ffh 3688548..3689897 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW28_RS18745 (EXW28_19180) - 3689910..3690242 (-) 333 WP_002033794.1 putative DNA-binding protein -
  EXW28_RS18750 (EXW28_19185) ftsY 3690375..3691364 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  EXW28_RS18755 (EXW28_19190) smc 3691379..3694948 (-) 3570 WP_002014517.1 chromosome segregation protein SMC -
  EXW28_RS18760 (EXW28_19195) rncS 3695097..3695834 (-) 738 WP_002033792.1 ribonuclease III -
  EXW28_RS18765 (EXW28_19200) acpP 3695893..3696126 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW28_RS18770 (EXW28_19205) fabG 3696196..3696936 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW28_RS18775 (EXW28_19210) fabD 3696936..3697880 (-) 945 WP_002128825.1 ACP S-malonyltransferase -
  EXW28_RS18780 (EXW28_19215) plsX 3697895..3698887 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW28_RS18785 (EXW28_19220) fapR 3698884..3699477 (-) 594 WP_000747354.1 transcription factor FapR -
  EXW28_RS18790 (EXW28_19225) recG 3699566..3701614 (-) 2049 WP_002014510.1 ATP-dependent DNA helicase RecG -
  EXW28_RS18795 (EXW28_19235) - 3702039..3703715 (-) 1677 WP_002014508.1 DAK2 domain-containing protein -
  EXW28_RS18800 (EXW28_19240) - 3703738..3704100 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW28_RS18805 (EXW28_19245) rpmB 3704479..3704667 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW28_RS18810 (EXW28_19250) spoVM 3704741..3704821 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW28_RS18815 (EXW28_19255) - 3704888..3705568 (-) 681 WP_002014506.1 thiamine diphosphokinase -
  EXW28_RS18820 (EXW28_19260) rpe 3705669..3706313 (-) 645 WP_002014505.1 ribulose-phosphate 3-epimerase -
  EXW28_RS18825 (EXW28_19265) rsgA 3706316..3707197 (-) 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=346238 EXW28_RS18655 WP_002014541.1 3673042..3673821(-) (codY) [Bacillus mycoides strain BPN601]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=346238 EXW28_RS18655 WP_002014541.1 3673042..3673821(-) (codY) [Bacillus mycoides strain BPN601]
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