Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   ABM478_RS19420 Genome accession   NZ_CP157848
Coordinates   3822810..3823589 (-) Length   259 a.a.
NCBI ID   WP_000421290.1    Uniprot ID   A0A9W5VKA1
Organism   Bacillus cereus strain B9     
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 3797516..3859275 3822810..3823589 within 0


Gene organization within MGE regions


Location: 3797516..3859275
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABM478_RS19310 - 3798086..3798985 (-) 900 WP_000868217.1 polysaccharide deacetylase family protein -
  ABM478_RS19315 pnp 3799137..3801275 (-) 2139 WP_000076737.1 polyribonucleotide nucleotidyltransferase -
  ABM478_RS19320 rpsO 3801436..3801705 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  ABM478_RS19325 ribF 3801806..3802777 (-) 972 WP_000766706.1 bifunctional riboflavin kinase/FAD synthetase -
  ABM478_RS19330 truB 3802821..3803744 (-) 924 WP_000399352.1 tRNA pseudouridine(55) synthase TruB -
  ABM478_RS19335 rbfA 3803831..3804187 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  ABM478_RS19340 - 3804203..3804484 (-) 282 WP_000582363.1 DUF503 family protein -
  ABM478_RS19345 infB 3804481..3806541 (-) 2061 WP_000036343.1 translation initiation factor IF-2 -
  ABM478_RS19350 - 3806546..3806857 (-) 312 WP_001286523.1 YlxQ family RNA-binding protein -
  ABM478_RS19355 - 3806858..3807130 (-) 273 WP_000071127.1 YlxR family protein -
  ABM478_RS19360 nusA 3807142..3808248 (-) 1107 WP_000102604.1 transcription termination factor NusA -
  ABM478_RS19365 rimP 3808266..3808736 (-) 471 WP_000359096.1 ribosome maturation factor RimP -
  ABM478_RS19370 - 3809073..3813374 (-) 4302 WP_000060005.1 PolC-type DNA polymerase III -
  ABM478_RS19375 - 3813499..3815199 (-) 1701 WP_000814299.1 proline--tRNA ligase -
  ABM478_RS19380 rseP 3815309..3816565 (-) 1257 WP_001090243.1 RIP metalloprotease RseP -
  ABM478_RS19385 dxr 3816583..3817725 (-) 1143 WP_000790373.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  ABM478_RS19390 cdsA 3817749..3818540 (-) 792 WP_000813592.1 phosphatidate cytidylyltransferase -
  ABM478_RS19395 uppS 3818558..3819334 (-) 777 WP_000971296.1 isoprenyl transferase -
  ABM478_RS19400 frr 3819420..3819977 (-) 558 WP_000531501.1 ribosome recycling factor -
  ABM478_RS19405 pyrH 3819980..3820702 (-) 723 WP_000042668.1 UMP kinase -
  ABM478_RS19410 tsf 3820769..3821656 (-) 888 WP_001018578.1 translation elongation factor Ts -
  ABM478_RS19415 rpsB 3821760..3822461 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  ABM478_RS19420 codY 3822810..3823589 (-) 780 WP_000421290.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  ABM478_RS19425 hslU 3823667..3825058 (-) 1392 WP_000550078.1 ATP-dependent protease ATPase subunit HslU -
  ABM478_RS19430 hslV 3825081..3825623 (-) 543 WP_000526272.1 ATP-dependent protease proteolytic subunit HslV -
  ABM478_RS19435 xerC 3825666..3826565 (-) 900 WP_001101243.1 tyrosine recombinase XerC -
  ABM478_RS19440 trmFO 3826631..3827935 (-) 1305 WP_000213003.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  ABM478_RS19445 topA 3827984..3830062 (-) 2079 WP_001286963.1 type I DNA topoisomerase -
  ABM478_RS19450 dprA 3830207..3831076 (-) 870 WP_000818060.1 DNA-processing protein DprA -
  ABM478_RS19455 sucD 3831165..3832067 (-) 903 WP_000115178.1 succinate--CoA ligase subunit alpha -
  ABM478_RS19460 sucC 3832087..3833247 (-) 1161 WP_001020791.1 ADP-forming succinate--CoA ligase subunit beta -
  ABM478_RS19465 - 3833442..3834215 (-) 774 WP_001194265.1 ribonuclease HII -
  ABM478_RS19470 ylqF 3834272..3835162 (-) 891 WP_000236704.1 ribosome biogenesis GTPase YlqF -
  ABM478_RS19475 lepB 3835183..3835734 (-) 552 WP_000711853.1 signal peptidase I -
  ABM478_RS19480 rplS 3835836..3836180 (-) 345 WP_001186516.1 50S ribosomal protein L19 -
  ABM478_RS19485 trmD 3836327..3837061 (-) 735 WP_000686903.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  ABM478_RS19490 rimM 3837061..3837576 (-) 516 WP_000170278.1 ribosome maturation factor RimM -
  ABM478_RS19495 - 3837698..3837925 (-) 228 WP_000737401.1 KH domain-containing protein -
  ABM478_RS19500 rpsP 3837940..3838212 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  ABM478_RS19505 ffh 3838314..3839663 (-) 1350 WP_000863460.1 signal recognition particle protein -
  ABM478_RS19510 - 3839676..3840008 (-) 333 WP_000891062.1 putative DNA-binding protein -
  ABM478_RS19515 ftsY 3840142..3841131 (-) 990 WP_000007655.1 signal recognition particle-docking protein FtsY -
  ABM478_RS19520 smc 3841147..3844716 (-) 3570 WP_121868057.1 chromosome segregation protein SMC -
  ABM478_RS19525 rncS 3844863..3845600 (-) 738 WP_001146875.1 ribonuclease III -
  ABM478_RS19530 acpP 3845659..3845892 (-) 234 WP_000786062.1 acyl carrier protein -
  ABM478_RS19535 fabG 3845962..3846702 (-) 741 WP_000911773.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  ABM478_RS19540 fabD 3846702..3847646 (-) 945 WP_000515899.1 ACP S-malonyltransferase -
  ABM478_RS19545 plsX 3847661..3848653 (-) 993 WP_000684100.1 phosphate acyltransferase PlsX -
  ABM478_RS19550 fapR 3848650..3849243 (-) 594 WP_000747348.1 transcription factor FapR -
  ABM478_RS19555 recG 3849332..3851380 (-) 2049 WP_001000816.1 ATP-dependent DNA helicase RecG -
  ABM478_RS19560 - 3851671..3853347 (-) 1677 WP_000027129.1 DAK2 domain-containing protein -
  ABM478_RS19565 - 3853370..3853732 (-) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  ABM478_RS19570 rpmB 3854109..3854297 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  ABM478_RS19575 spoVM 3854371..3854451 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  ABM478_RS19580 - 3854518..3855198 (-) 681 WP_002026234.1 thiamine diphosphokinase -
  ABM478_RS19585 rpe 3855267..3855911 (-) 645 WP_071741402.1 ribulose-phosphate 3-epimerase -
  ABM478_RS19590 rsgA 3855914..3856795 (-) 882 WP_065212078.1 ribosome small subunit-dependent GTPase A -
  ABM478_RS19595 pknB 3857042..3859015 (-) 1974 WP_000904747.1 Stk1 family PASTA domain-containing Ser/Thr kinase -

Sequence

Protein


Download         Length: 259 a.a.        Molecular weight: 28793.05 Da        Isoelectric Point: 4.7165

>NTDB_id=1008481 ABM478_RS19420 WP_000421290.1 3822810..3823589(-) (codY) [Bacillus cereus strain B9]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=1008481 ABM478_RS19420 WP_000421290.1 3822810..3823589(-) (codY) [Bacillus cereus strain B9]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGGAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCAAACGTATTCGTAGTTAGCCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAAAACGAACGCATGAAGCAAATGCTTGCAGAACGTCAATTCCCAGAAGAATATACACAAAGCTTATTC
AACATTACAGAAACATCTTCAAACTTAGATGTGAACAGTGCTTACACAGCATTCCCAGTAGAAAACAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATCCTTGCTGAGTACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCGCGTAGTAAAGCTGTTGTTCAAATGGCAATCAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
TGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTAGGAATTACTC
GCTCTGTAATCGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTTATTGAGTCTCGCTCTTTAGGTATGAAAGGAACA
TACATTAAAGTGCTAAACGACAAGTTTCTACAAGAACTTGCTAAATTAAAAACAAACTAA

Domains

Predicted by InterproScan.

CodY GAF-like domain (CodY)

(2-178)

CodY helix-turn-helix domain (HTH_CodY)

(198-255)


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

81.467

100

0.815
  codY Lactococcus lactis subsp. lactis strain DGCC12653

46.667

98.456

0.459

Multiple sequence alignment