Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   MLD62_RS19645 Genome accession   NZ_CP092833
Coordinates   3870113..3870892 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain LX30     
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 3838567..3905601 3870113..3870892 within 0


Gene organization within MGE regions


Location: 3838567..3905601
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MLD62_RS19500 dapA 3838631..3839509 (-) 879 WP_085312219.1 4-hydroxy-tetrahydrodipicolinate synthase -
  MLD62_RS19505 dapG 3839521..3840753 (-) 1233 WP_085312220.1 aspartate kinase -
  MLD62_RS19510 asd 3840777..3841823 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  MLD62_RS19515 dpaB 3841973..3842572 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  MLD62_RS19520 dpaA 3842569..3843471 (-) 903 WP_002128797.1 dipicolinic acid synthetase subunit A -
  MLD62_RS19525 - 3843644..3843892 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  MLD62_RS19530 - 3844028..3845269 (-) 1242 WP_085312221.1 pitrilysin family protein -
  MLD62_RS19535 - 3845356..3846255 (-) 900 WP_085312222.1 polysaccharide deacetylase family protein -
  MLD62_RS19540 pnp 3846410..3848563 (-) 2154 WP_241138579.1 polyribonucleotide nucleotidyltransferase -
  MLD62_RS19545 rpsO 3848725..3848994 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  MLD62_RS19550 ribF 3849095..3850066 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  MLD62_RS19555 truB 3850110..3851033 (-) 924 WP_002033681.1 tRNA pseudouridine(55) synthase TruB -
  MLD62_RS19560 rbfA 3851124..3851480 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  MLD62_RS19565 - 3851496..3851777 (-) 282 WP_002088157.1 DUF503 family protein -
  MLD62_RS19570 infB 3851774..3853840 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  MLD62_RS19575 - 3853845..3854156 (-) 312 WP_002033679.1 YlxQ family RNA-binding protein -
  MLD62_RS19580 - 3854157..3854429 (-) 273 WP_002088161.1 YlxR family protein -
  MLD62_RS19585 nusA 3854441..3855547 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  MLD62_RS19590 rimP 3855565..3856035 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  MLD62_RS19595 - 3856369..3860670 (-) 4302 WP_085312224.1 PolC-type DNA polymerase III -
  MLD62_RS19600 - 3860795..3862495 (-) 1701 WP_085312225.1 proline--tRNA ligase -
  MLD62_RS19605 rseP 3862605..3863861 (-) 1257 WP_241138580.1 RIP metalloprotease RseP -
  MLD62_RS19610 dxr 3863879..3865021 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  MLD62_RS19615 cdsA 3865045..3865836 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  MLD62_RS19620 - 3865854..3866630 (-) 777 WP_002014545.1 isoprenyl transferase -
  MLD62_RS19625 frr 3866716..3867273 (-) 558 WP_000531506.1 ribosome recycling factor -
  MLD62_RS19630 pyrH 3867277..3867999 (-) 723 WP_002014544.1 UMP kinase -
  MLD62_RS19635 tsf 3868066..3868953 (-) 888 WP_002088177.1 translation elongation factor Ts -
  MLD62_RS19640 rpsB 3869057..3869758 (-) 702 WP_002088178.1 30S ribosomal protein S2 -
  MLD62_RS19645 codY 3870113..3870892 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  MLD62_RS19650 hslU 3870970..3872361 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  MLD62_RS19655 hslV 3872384..3872926 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  MLD62_RS19660 xerC 3872969..3873868 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  MLD62_RS19665 trmFO 3873940..3875244 (-) 1305 WP_085312226.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  MLD62_RS19670 topA 3875293..3877371 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  MLD62_RS19675 dprA 3877516..3878385 (-) 870 WP_002014531.1 DNA-processing protein DprA -
  MLD62_RS19680 sucD 3878474..3879376 (-) 903 WP_000115186.1 succinate--CoA ligase subunit alpha -
  MLD62_RS19685 sucC 3879396..3880556 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  MLD62_RS19690 - 3880750..3881523 (-) 774 WP_002142917.1 ribonuclease HII -
  MLD62_RS19695 ylqF 3881579..3882469 (-) 891 WP_002014526.1 ribosome biogenesis GTPase YlqF -
  MLD62_RS19700 lepB 3882490..3883041 (-) 552 WP_002066791.1 signal peptidase I -
  MLD62_RS19705 rplS 3883142..3883486 (-) 345 WP_002014524.1 50S ribosomal protein L19 -
  MLD62_RS19710 trmD 3883633..3884367 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  MLD62_RS19715 rimM 3884367..3884882 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  MLD62_RS19720 - 3885004..3885231 (-) 228 WP_002088196.1 KH domain-containing protein -
  MLD62_RS19725 rpsP 3885246..3885518 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  MLD62_RS19730 ffh 3885619..3886968 (-) 1350 WP_002014519.1 signal recognition particle protein -
  MLD62_RS19735 - 3886981..3887313 (-) 333 WP_002033794.1 putative DNA-binding protein -
  MLD62_RS19740 ftsY 3887445..3888434 (-) 990 WP_002088200.1 signal recognition particle-docking protein FtsY -
  MLD62_RS19745 smc 3888449..3892018 (-) 3570 WP_002014517.1 chromosome segregation protein SMC -
  MLD62_RS19750 rncS 3892167..3892904 (-) 738 WP_002033792.1 ribonuclease III -
  MLD62_RS19755 acpP 3892963..3893196 (-) 234 WP_002014515.1 acyl carrier protein -
  MLD62_RS19760 fabG 3893266..3894006 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  MLD62_RS19765 fabD 3894006..3894950 (-) 945 WP_241138581.1 ACP S-malonyltransferase -
  MLD62_RS19770 plsX 3894965..3895957 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  MLD62_RS19775 fapR 3895954..3896547 (-) 594 WP_000747354.1 transcription factor FapR -
  MLD62_RS19780 recG 3896636..3898684 (-) 2049 WP_061674418.1 ATP-dependent DNA helicase RecG -
  MLD62_RS19785 - 3899109..3900785 (-) 1677 WP_002066784.1 DAK2 domain-containing protein -
  MLD62_RS19790 - 3900808..3901170 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  MLD62_RS19795 rpmB 3901549..3901737 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  MLD62_RS19800 spoVM 3901811..3901891 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  MLD62_RS19805 - 3901958..3902638 (-) 681 WP_002014506.1 thiamine diphosphokinase -
  MLD62_RS19810 rpe 3902739..3903383 (-) 645 WP_085312230.1 ribulose-phosphate 3-epimerase -
  MLD62_RS19815 rsgA 3903386..3904267 (-) 882 WP_241138582.1 ribosome small subunit-dependent GTPase A -

Sequence

Protein


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

>NTDB_id=660719 MLD62_RS19645 WP_002014541.1 3870113..3870892(-) (codY) [Bacillus mycoides strain LX30]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=660719 MLD62_RS19645 WP_002014541.1 3870113..3870892(-) (codY) [Bacillus mycoides strain LX30]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAGAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTGTTCGTTGTAAGTCGTCGCGGTAAATTATTAGGATATGCGATTC
ACCAACAAATCGAAAACGAACGTATGAAGCACATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACGCAAAGTTTATTC
AATGTTACAGAAACATCTTCAAATTTAGGTGTGGATAGTGACTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACACTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATTCTTGCTGAATACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTGTCTTACAGTGAGTTAGAAGCAAT
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