Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EXW35_RS18990 Genome accession   NZ_CP035965
Coordinates   3746687..3747466 (-) Length   259 a.a.
NCBI ID   WP_002014541.1    Uniprot ID   -
Organism   Bacillus mycoides strain BPN09/1     
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 3715163..3782158 3746687..3747466 within 0


Gene organization within MGE regions


Location: 3715163..3782158
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXW35_RS18845 (EXW35_19260) dapA 3715227..3716105 (-) 879 WP_002014579.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EXW35_RS18850 (EXW35_19265) dapG 3716117..3717349 (-) 1233 WP_002088068.1 aspartate kinase -
  EXW35_RS18855 (EXW35_19270) asd 3717373..3718419 (-) 1047 WP_002014577.1 aspartate-semialdehyde dehydrogenase -
  EXW35_RS18860 (EXW35_19275) dpaB 3718569..3719168 (-) 600 WP_002111357.1 dipicolinate synthase subunit B -
  EXW35_RS18865 (EXW35_19280) dpaA 3719165..3720067 (-) 903 WP_002128797.1 dipicolinic acid synthetase subunit A -
  EXW35_RS18870 (EXW35_19285) - 3720240..3720488 (-) 249 WP_002014571.1 YlmC/YmxH family sporulation protein -
  EXW35_RS18875 (EXW35_19290) - 3720624..3721865 (-) 1242 WP_002088150.1 pitrilysin family protein -
  EXW35_RS18880 (EXW35_19295) - 3721952..3722851 (-) 900 WP_002128798.1 polysaccharide deacetylase family protein -
  EXW35_RS18885 (EXW35_19300) pnp 3723006..3725159 (-) 2154 WP_002128799.1 polyribonucleotide nucleotidyltransferase -
  EXW35_RS18890 (EXW35_19305) rpsO 3725321..3725590 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  EXW35_RS18895 (EXW35_19310) ribF 3725691..3726662 (-) 972 WP_002128800.1 bifunctional riboflavin kinase/FAD synthetase -
  EXW35_RS18900 (EXW35_19315) truB 3726706..3727629 (-) 924 WP_002014562.1 tRNA pseudouridine(55) synthase TruB -
  EXW35_RS18905 (EXW35_19320) rbfA 3727720..3728076 (-) 357 WP_000776437.1 30S ribosome-binding factor RbfA -
  EXW35_RS18910 (EXW35_19325) - 3728092..3728373 (-) 282 WP_002088157.1 DUF503 family protein -
  EXW35_RS18915 (EXW35_19330) infB 3728370..3730436 (-) 2067 WP_002014558.1 translation initiation factor IF-2 -
  EXW35_RS18920 (EXW35_19335) - 3730441..3730752 (-) 312 WP_001286519.1 YlxQ family RNA-binding protein -
  EXW35_RS18925 (EXW35_19340) - 3730753..3731025 (-) 273 WP_002088161.1 YlxR family protein -
  EXW35_RS18930 (EXW35_19345) nusA 3731037..3732143 (-) 1107 WP_002014554.1 transcription termination factor NusA -
  EXW35_RS18935 (EXW35_19350) rimP 3732161..3732631 (-) 471 WP_002088165.1 ribosome maturation factor RimP -
  EXW35_RS18940 (EXW35_19355) - 3732965..3737266 (-) 4302 WP_002185075.1 PolC-type DNA polymerase III -
  EXW35_RS18945 (EXW35_19360) - 3737391..3739091 (-) 1701 WP_002128803.1 proline--tRNA ligase -
  EXW35_RS18950 (EXW35_19365) rseP 3739201..3740457 (-) 1257 WP_002185073.1 RIP metalloprotease RseP -
  EXW35_RS18955 (EXW35_19370) dxr 3740475..3741617 (-) 1143 WP_002014547.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EXW35_RS18960 (EXW35_19375) cdsA 3741641..3742432 (-) 792 WP_002088171.1 phosphatidate cytidylyltransferase -
  EXW35_RS18965 (EXW35_19380) - 3742450..3743226 (-) 777 WP_002185072.1 isoprenyl transferase -
  EXW35_RS18970 (EXW35_19385) frr 3743312..3743869 (-) 558 WP_000531506.1 ribosome recycling factor -
  EXW35_RS18975 (EXW35_19390) pyrH 3743873..3744595 (-) 723 WP_002014544.1 UMP kinase -
  EXW35_RS18980 (EXW35_19395) tsf 3744662..3745549 (-) 888 WP_002185071.1 translation elongation factor Ts -
  EXW35_RS18985 (EXW35_19400) rpsB 3745632..3746333 (-) 702 WP_002185070.1 30S ribosomal protein S2 -
  EXW35_RS18990 (EXW35_19405) codY 3746687..3747466 (-) 780 WP_002014541.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EXW35_RS18995 (EXW35_19410) hslU 3747544..3748935 (-) 1392 WP_002014539.1 ATP-dependent protease ATPase subunit HslU -
  EXW35_RS19000 (EXW35_19415) hslV 3748958..3749500 (-) 543 WP_002014538.1 ATP-dependent protease proteolytic subunit HslV -
  EXW35_RS19005 (EXW35_19420) xerC 3749543..3750442 (-) 900 WP_078175468.1 tyrosine recombinase XerC -
  EXW35_RS19010 (EXW35_19425) trmFO 3750514..3751818 (-) 1305 WP_002066796.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EXW35_RS19015 (EXW35_19430) topA 3751867..3753945 (-) 2079 WP_002088184.1 type I DNA topoisomerase -
  EXW35_RS19020 (EXW35_19435) dprA 3754090..3754941 (-) 852 WP_215550637.1 DNA-processing protein DprA -
  EXW35_RS19025 (EXW35_19440) sucD 3755030..3755932 (-) 903 WP_002033796.1 succinate--CoA ligase subunit alpha -
  EXW35_RS19030 (EXW35_19445) sucC 3755952..3757112 (-) 1161 WP_002014529.1 ADP-forming succinate--CoA ligase subunit beta -
  EXW35_RS19035 (EXW35_19450) - 3757306..3758079 (-) 774 WP_215550638.1 ribonuclease HII -
  EXW35_RS19040 (EXW35_19455) ylqF 3758135..3759025 (-) 891 WP_002128821.1 ribosome biogenesis GTPase YlqF -
  EXW35_RS19045 (EXW35_19460) lepB 3759046..3759597 (-) 552 WP_002066791.1 signal peptidase I -
  EXW35_RS19050 (EXW35_19465) rplS 3759698..3760042 (-) 345 WP_002185067.1 50S ribosomal protein L19 -
  EXW35_RS19055 (EXW35_19470) trmD 3760189..3760923 (-) 735 WP_002014522.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EXW35_RS19060 (EXW35_19475) rimM 3760923..3761438 (-) 516 WP_002014521.1 ribosome maturation factor RimM -
  EXW35_RS19065 (EXW35_19480) - 3761560..3761787 (-) 228 WP_002088196.1 KH domain-containing protein -
  EXW35_RS19070 (EXW35_19485) rpsP 3761802..3762074 (-) 273 WP_002185065.1 30S ribosomal protein S16 -
  EXW35_RS19075 (EXW35_19490) ffh 3762175..3763524 (-) 1350 WP_002014519.1 signal recognition particle protein -
  EXW35_RS19080 (EXW35_19495) - 3763537..3763869 (-) 333 WP_000891061.1 putative DNA-binding protein -
  EXW35_RS19085 (EXW35_19500) ftsY 3764002..3764991 (-) 990 WP_002185064.1 signal recognition particle-docking protein FtsY -
  EXW35_RS19090 (EXW35_19505) smc 3765006..3768575 (-) 3570 WP_002014517.1 chromosome segregation protein SMC -
  EXW35_RS19095 (EXW35_19510) rncS 3768724..3769461 (-) 738 WP_002033792.1 ribonuclease III -
  EXW35_RS19100 (EXW35_19515) acpP 3769520..3769753 (-) 234 WP_002014515.1 acyl carrier protein -
  EXW35_RS19105 (EXW35_19520) fabG 3769823..3770563 (-) 741 WP_002014514.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EXW35_RS19110 (EXW35_19525) fabD 3770563..3771507 (-) 945 WP_002128825.1 ACP S-malonyltransferase -
  EXW35_RS19115 (EXW35_19530) plsX 3771522..3772514 (-) 993 WP_002128828.1 phosphate acyltransferase PlsX -
  EXW35_RS19120 (EXW35_19535) fapR 3772511..3773104 (-) 594 WP_002185063.1 transcription factor FapR -
  EXW35_RS19125 (EXW35_19540) recG 3773193..3775241 (-) 2049 WP_003190964.1 ATP-dependent DNA helicase RecG -
  EXW35_RS19130 (EXW35_19545) - 3775666..3777342 (-) 1677 WP_002185060.1 DAK2 domain-containing protein -
  EXW35_RS19135 (EXW35_19550) - 3777365..3777727 (-) 363 WP_002014507.1 Asp23/Gls24 family envelope stress response protein -
  EXW35_RS19140 (EXW35_19555) rpmB 3778106..3778294 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  EXW35_RS19145 (EXW35_19560) spoVM 3778368..3778448 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EXW35_RS19150 (EXW35_19565) - 3778515..3779195 (-) 681 WP_002014506.1 thiamine diphosphokinase -
  EXW35_RS19155 (EXW35_19570) rpe 3779296..3779940 (-) 645 WP_002185059.1 ribulose-phosphate 3-epimerase -
  EXW35_RS19160 (EXW35_19575) rsgA 3779943..3780824 (-) 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=345373 EXW35_RS18990 WP_002014541.1 3746687..3747466(-) (codY) [Bacillus mycoides strain BPN09/1]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKHMLAERQFPEEYTQSLF
NVTETSSNLGVDSDYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=345373 EXW35_RS18990 WP_002014541.1 3746687..3747466(-) (codY) [Bacillus mycoides strain BPN09/1]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAGAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTGTTCGTTGTAAGTCGTCGCGGTAAATTATTAGGATATGCGATTC
ACCAACAAATCGAAAACGAACGTATGAAGCACATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACGCAAAGTTTATTC
AATGTTACAGAAACATCTTCAAATTTAGGTGTGGATAGTGACTACACAGCATTCCCGGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACACTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATTCTTGCTGAATACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTGGGAATTACTC
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