Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   K6T24_RS18450 Genome accession   NZ_CP081872
Coordinates   3673873..3674652 (-) Length   259 a.a.
NCBI ID   WP_000421291.1    Uniprot ID   A0A1V6LJD3
Organism   Bacillus toyonensis strain UTDF19-29B     
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 3647052..3701374 3673873..3674652 within 0


Gene organization within MGE regions


Location: 3647052..3701374
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6T24_RS18330 (K6T24_18255) - 3647444..3647695 (-) 252 WP_001239739.1 YlmC/YmxH family sporulation protein -
  K6T24_RS18335 (K6T24_18260) - 3647825..3649066 (-) 1242 WP_000592990.1 pitrilysin family protein -
  K6T24_RS18340 (K6T24_18265) - 3649153..3650052 (-) 900 WP_238185576.1 polysaccharide deacetylase family protein -
  K6T24_RS18345 (K6T24_18270) pnp 3650204..3652342 (-) 2139 WP_085450618.1 polyribonucleotide nucleotidyltransferase -
  K6T24_RS18350 (K6T24_18275) rpsO 3652503..3652772 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  K6T24_RS18355 (K6T24_18280) ribF 3652873..3653844 (-) 972 WP_000766714.1 bifunctional riboflavin kinase/FAD synthetase -
  K6T24_RS18360 (K6T24_18285) truB 3653888..3654811 (-) 924 WP_000399360.1 tRNA pseudouridine(55) synthase TruB -
  K6T24_RS18365 (K6T24_18290) rbfA 3654897..3655253 (-) 357 WP_000776439.1 30S ribosome-binding factor RbfA -
  K6T24_RS18370 (K6T24_18295) - 3655269..3655550 (-) 282 WP_000582364.1 DUF503 domain-containing protein -
  K6T24_RS18375 (K6T24_18300) infB 3655547..3657607 (-) 2061 WP_000036352.1 translation initiation factor IF-2 -
  K6T24_RS18380 (K6T24_18305) - 3657612..3657923 (-) 312 WP_001286525.1 YlxQ family RNA-binding protein -
  K6T24_RS18385 (K6T24_18310) rnpM 3657924..3658196 (-) 273 WP_000071127.1 RNase P modulator RnpM -
  K6T24_RS18390 (K6T24_18315) nusA 3658208..3659314 (-) 1107 WP_000102596.1 transcription termination factor NusA -
  K6T24_RS18395 (K6T24_18320) rimP 3659332..3659802 (-) 471 WP_000359095.1 ribosome maturation factor RimP -
  K6T24_RS18400 (K6T24_18325) - 3660136..3664437 (-) 4302 WP_000060014.1 PolC-type DNA polymerase III -
  K6T24_RS18405 (K6T24_18330) - 3664562..3666262 (-) 1701 WP_000814319.1 proline--tRNA ligase -
  K6T24_RS18410 (K6T24_18335) rseP 3666372..3667628 (-) 1257 WP_001090232.1 RIP metalloprotease RseP -
  K6T24_RS18415 (K6T24_18340) dxr 3667646..3668788 (-) 1143 WP_000790353.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  K6T24_RS18420 (K6T24_18345) cdsA 3668812..3669603 (-) 792 WP_000813595.1 phosphatidate cytidylyltransferase -
  K6T24_RS18425 (K6T24_18350) uppS 3669621..3670397 (-) 777 WP_000971308.1 isoprenyl transferase -
  K6T24_RS18430 (K6T24_18355) frr 3670483..3671040 (-) 558 WP_000531505.1 ribosome recycling factor -
  K6T24_RS18435 (K6T24_18360) pyrH 3671043..3671765 (-) 723 WP_000042662.1 UMP kinase -
  K6T24_RS18440 (K6T24_18365) tsf 3671832..3672719 (-) 888 WP_001018579.1 translation elongation factor Ts -
  K6T24_RS18445 (K6T24_18370) rpsB 3672823..3673524 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  K6T24_RS18450 (K6T24_18375) codY 3673873..3674652 (-) 780 WP_000421291.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  K6T24_RS18455 (K6T24_18380) hslU 3674730..3676121 (-) 1392 WP_000550076.1 ATP-dependent protease ATPase subunit HslU -
  K6T24_RS18460 (K6T24_18385) hslV 3676144..3676686 (-) 543 WP_000526274.1 ATP-dependent protease proteolytic subunit HslV -
  K6T24_RS18465 (K6T24_18390) xerC 3676729..3677628 (-) 900 WP_001101252.1 tyrosine recombinase XerC -
  K6T24_RS18470 (K6T24_18395) trmFO 3677694..3678998 (-) 1305 WP_085450620.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  K6T24_RS18475 (K6T24_18400) topA 3679047..3681125 (-) 2079 WP_001286961.1 type I DNA topoisomerase -
  K6T24_RS18480 (K6T24_18405) dprA 3681270..3682139 (-) 870 WP_000818051.1 DNA-processing protein DprA -
  K6T24_RS18485 (K6T24_18410) sucD 3682228..3683130 (-) 903 WP_000115185.1 succinate--CoA ligase subunit alpha -
  K6T24_RS18490 (K6T24_18415) sucC 3683150..3684310 (-) 1161 WP_001020779.1 ADP-forming succinate--CoA ligase subunit beta -
  K6T24_RS18495 (K6T24_18420) - 3684505..3685278 (-) 774 WP_001171133.1 ribonuclease HII -
  K6T24_RS18500 (K6T24_18425) ylqF 3685335..3686225 (-) 891 WP_000236690.1 ribosome biogenesis GTPase YlqF -
  K6T24_RS18505 (K6T24_18430) lepB 3686246..3686797 (-) 552 WP_000712442.1 signal peptidase I -
  K6T24_RS18510 (K6T24_18435) rplS 3686899..3687243 (-) 345 WP_001186517.1 50S ribosomal protein L19 -
  K6T24_RS18515 (K6T24_18440) trmD 3687390..3688124 (-) 735 WP_238185577.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  K6T24_RS18520 (K6T24_18445) rimM 3688124..3688639 (-) 516 WP_000170280.1 ribosome maturation factor RimM -
  K6T24_RS18525 (K6T24_18450) - 3688761..3688988 (-) 228 WP_000737399.1 KH domain-containing protein -
  K6T24_RS18530 (K6T24_18455) rpsP 3689003..3689275 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  K6T24_RS18535 (K6T24_18460) ffh 3689377..3690726 (-) 1350 WP_000863463.1 signal recognition particle protein -
  K6T24_RS18540 (K6T24_18465) - 3690739..3691071 (-) 333 WP_000891061.1 putative DNA-binding protein -
  K6T24_RS18545 (K6T24_18470) ftsY 3691205..3692194 (-) 990 WP_000007643.1 signal recognition particle-docking protein FtsY -
  K6T24_RS18550 (K6T24_18475) smc 3692209..3695778 (-) 3570 WP_000479008.1 chromosome segregation protein SMC -
  K6T24_RS18555 (K6T24_18480) rncS 3695925..3696662 (-) 738 WP_001146877.1 ribonuclease III -
  K6T24_RS18560 (K6T24_18485) acpP 3696722..3696955 (-) 234 WP_000786062.1 acyl carrier protein -
  K6T24_RS18565 (K6T24_18490) fabG 3697025..3697765 (-) 741 WP_000911780.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  K6T24_RS18570 (K6T24_18495) fabD 3697765..3698709 (-) 945 WP_000515917.1 ACP S-malonyltransferase -
  K6T24_RS18575 (K6T24_18500) plsX 3698724..3699716 (-) 993 WP_000684090.1 phosphate acyltransferase PlsX -
  K6T24_RS18580 (K6T24_18505) fapR 3699713..3700306 (-) 594 WP_000747351.1 transcription factor FapR -

Sequence

Protein


Download         Length: 259 a.a.        Molecular weight: 28788.03 Da        Isoelectric Point: 4.7947

>NTDB_id=597972 K6T24_RS18450 WP_000421291.1 3673873..3674652(-) (codY) [Bacillus toyonensis strain UTDF19-29B]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NVTETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLHELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=597972 K6T24_RS18450 WP_000421291.1 3673873..3674652(-) (codY) [Bacillus toyonensis strain UTDF19-29B]
ATGGAATTATTAGCAAAAACAAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCGAACGTATTCGTAGTAAGTCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAGAACGAGCGTATGAAACAAATGCTTGCAGAGCGTCAATTCCCAGAAGAATATACGCAAAGCTTATTC
AATGTAACGGAAACATCTTCAAACTTAGATGTAAACAGTGCTTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTGTTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATCCTTGCTGAATACAGTTCAACTGTAGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
TGAGCACATTTTCGAAGAGTTAAACGGAACAGAAGGTCTACTTGTTGCAAGTAAAATTGCTGATCGTGTAGGAATCACTC
GTTCTGTGATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATCGAGTCTCGTTCTTTAGGTATGAAAGGAACA
TACATTAAAGTATTAAACGACAAATTTTTACATGAACTTGCTAAATTAAAAACAAACTAA

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
  AlphaFold DB A0A1V6LJD3

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

81.853

100

0.819
  codY Lactococcus lactis subsp. lactis strain DGCC12653

46.275

98.456

0.456