Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW33_RS04065 Genome accession   NZ_CP036014
Coordinates   844056..844835 (-) Length   259 a.a.
NCBI ID   WP_000421291.1    Uniprot ID   A0A1V6LJD3
Organism   Bacillus toyonensis strain BPN45/4     
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 818767..880574 844056..844835 within 0


Gene organization within MGE regions


Location: 818767..880574
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW33_RS03955 (EXW33_04105) - 819337..820236 (-) 900 WP_000868233.1 polysaccharide deacetylase family protein -
  EXW33_RS03960 (EXW33_04110) pnp 820388..822526 (-) 2139 WP_000076735.1 polyribonucleotide nucleotidyltransferase -
  EXW33_RS03965 (EXW33_04115) rpsO 822687..822956 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW33_RS03970 (EXW33_04120) ribF 823057..824028 (-) 972 WP_000766713.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW33_RS03975 (EXW33_04125) truB 824072..824995 (-) 924 WP_000399359.1 tRNA pseudouridine(55) synthase TruB -
  EXW33_RS03980 (EXW33_04130) rbfA 825081..825437 (-) 357 WP_000776439.1 30S ribosome-binding factor RbfA -
  EXW33_RS03985 (EXW33_04135) - 825453..825734 (-) 282 WP_000582364.1 DUF503 family protein -
  EXW33_RS03990 (EXW33_04140) infB 825731..827791 (-) 2061 WP_000036352.1 translation initiation factor IF-2 -
  EXW33_RS03995 (EXW33_04145) - 827796..828107 (-) 312 WP_001286525.1 YlxQ family RNA-binding protein -
  EXW33_RS04000 (EXW33_04150) - 828108..828380 (-) 273 WP_000071127.1 YlxR family protein -
  EXW33_RS04005 (EXW33_04155) nusA 828392..829498 (-) 1107 WP_000102596.1 transcription termination factor NusA -
  EXW33_RS04010 (EXW33_04160) rimP 829516..829986 (-) 471 WP_000359095.1 ribosome maturation factor RimP -
  EXW33_RS04015 (EXW33_04165) - 830320..834621 (-) 4302 WP_000060011.1 PolC-type DNA polymerase III -
  EXW33_RS04020 (EXW33_04170) - 834746..836446 (-) 1701 WP_000814324.1 proline--tRNA ligase -
  EXW33_RS04025 (EXW33_04175) rseP 836556..837812 (-) 1257 WP_001090232.1 RIP metalloprotease RseP -
  EXW33_RS04030 (EXW33_04180) dxr 837830..838972 (-) 1143 WP_000790354.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW33_RS04035 (EXW33_04185) cdsA 838996..839787 (-) 792 WP_000813595.1 phosphatidate cytidylyltransferase -
  EXW33_RS04040 (EXW33_04190) uppS 839805..840581 (-) 777 WP_000971308.1 isoprenyl transferase -
  EXW33_RS04045 (EXW33_04195) frr 840667..841224 (-) 558 WP_000531505.1 ribosome recycling factor -
  EXW33_RS04050 (EXW33_04200) pyrH 841227..841949 (-) 723 WP_000042662.1 UMP kinase -
  EXW33_RS04055 (EXW33_04205) tsf 842016..842903 (-) 888 WP_001018579.1 translation elongation factor Ts -
  EXW33_RS04060 (EXW33_04210) rpsB 843007..843708 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  EXW33_RS04065 (EXW33_04215) codY 844056..844835 (-) 780 WP_000421291.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW33_RS04070 (EXW33_04220) hslU 844913..846304 (-) 1392 WP_000550076.1 ATP-dependent protease ATPase subunit HslU -
  EXW33_RS04075 (EXW33_04225) hslV 846327..846869 (-) 543 WP_000526274.1 ATP-dependent protease proteolytic subunit HslV -
  EXW33_RS04080 (EXW33_04230) xerC 846912..847811 (-) 900 WP_001101240.1 tyrosine recombinase XerC -
  EXW33_RS04085 (EXW33_04235) trmFO 847877..849181 (-) 1305 WP_000212000.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW33_RS04090 (EXW33_04240) topA 849230..851308 (-) 2079 WP_001286961.1 type I DNA topoisomerase -
  EXW33_RS04095 (EXW33_04245) dprA 851453..852322 (-) 870 WP_000818051.1 DNA-processing protein DprA -
  EXW33_RS04100 (EXW33_04250) sucD 852411..853313 (-) 903 WP_000115185.1 succinate--CoA ligase subunit alpha -
  EXW33_RS04105 (EXW33_04255) sucC 853333..854493 (-) 1161 WP_001020779.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW33_RS04110 (EXW33_04260) - 854688..855461 (-) 774 WP_001171132.1 ribonuclease HII -
  EXW33_RS04115 (EXW33_04265) ylqF 855518..856408 (-) 891 WP_000236689.1 ribosome biogenesis GTPase YlqF -
  EXW33_RS04120 (EXW33_04270) lepB 856429..856980 (-) 552 WP_000712442.1 signal peptidase I -
  EXW33_RS04125 (EXW33_04275) rplS 857082..857426 (-) 345 WP_001186517.1 50S ribosomal protein L19 -
  EXW33_RS04130 (EXW33_04280) trmD 857573..858307 (-) 735 WP_000686907.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW33_RS04135 (EXW33_04285) rimM 858307..858822 (-) 516 WP_000170280.1 ribosome maturation factor RimM -
  EXW33_RS04140 (EXW33_04290) - 858944..859171 (-) 228 WP_000737399.1 KH domain-containing protein -
  EXW33_RS04145 (EXW33_04295) rpsP 859186..859458 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  EXW33_RS04150 (EXW33_04300) ffh 859560..860909 (-) 1350 WP_000863463.1 signal recognition particle protein -
  EXW33_RS04155 (EXW33_04305) - 860922..861254 (-) 333 WP_000891061.1 putative DNA-binding protein -
  EXW33_RS04160 (EXW33_04310) ftsY 861388..862377 (-) 990 WP_000007643.1 signal recognition particle-docking protein FtsY -
  EXW33_RS04165 (EXW33_04315) smc 862392..865961 (-) 3570 WP_000479010.1 chromosome segregation protein SMC -
  EXW33_RS04170 (EXW33_04320) rncS 866108..866845 (-) 738 WP_001146877.1 ribonuclease III -
  EXW33_RS04175 (EXW33_04325) acpP 866905..867138 (-) 234 WP_000786062.1 acyl carrier protein -
  EXW33_RS04180 (EXW33_04330) fabG 867208..867948 (-) 741 WP_000911780.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW33_RS04185 (EXW33_04335) fabD 867948..868892 (-) 945 WP_000515916.1 ACP S-malonyltransferase -
  EXW33_RS04190 (EXW33_04340) plsX 868907..869899 (-) 993 WP_000684090.1 phosphate acyltransferase PlsX -
  EXW33_RS04195 (EXW33_04345) fapR 869896..870489 (-) 594 WP_000747351.1 transcription factor FapR -
  EXW33_RS04200 (EXW33_04350) recG 870578..872626 (-) 2049 WP_001000818.1 ATP-dependent DNA helicase RecG -
  EXW33_RS04205 (EXW33_04355) - 872916..874592 (-) 1677 WP_000027120.1 DAK2 domain-containing protein -
  EXW33_RS04210 (EXW33_04360) - 874615..874977 (-) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  EXW33_RS04215 (EXW33_04365) rpmB 875354..875542 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW33_RS04220 (EXW33_04370) spoVM 875616..875696 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW33_RS04225 (EXW33_04375) - 875763..876443 (-) 681 WP_002048799.1 thiamine diphosphokinase -
  EXW33_RS04230 (EXW33_04380) rpe 876544..877188 (-) 645 WP_000589965.1 ribulose-phosphate 3-epimerase -
  EXW33_RS04235 (EXW33_04385) rsgA 877191..878072 (-) 882 WP_001113946.1 ribosome small subunit-dependent GTPase A -
  EXW33_RS04240 (EXW33_04390) prkC 878342..880315 (-) 1974 WP_000904737.1 serine/threonine protein kinase PrkC -

Sequence

Protein


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

>NTDB_id=345859 EXW33_RS04065 WP_000421291.1 844056..844835(-) (codY) [Bacillus toyonensis strain BPN45/4]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NVTETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLHELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=345859 EXW33_RS04065 WP_000421291.1 844056..844835(-) (codY) [Bacillus toyonensis strain BPN45/4]
ATGGAATTATTAGCAAAAACAAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAAAT
GTCTGATACAATGTGTGAAGTAATCGAAGCGAACGTATTCGTAGTAAGTCGTCGTGGTAAATTACTAGGTTATGCAATTC
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

Multiple sequence alignment