Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   JCR32_RS18055 Genome accession   NZ_CP067069
Coordinates   3544854..3545633 (-) Length   259 a.a.
NCBI ID   WP_000421288.1    Uniprot ID   Q81WK7
Organism   Bacillus sp. HNR-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 3518230..3564266 3544854..3545633 within 0


Gene organization within MGE regions


Location: 3518230..3564266
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JCR32_RS17935 (JCR32_17845) - 3518425..3518676 (-) 252 WP_274430171.1 YlmC/YmxH family sporulation protein -
  JCR32_RS17940 (JCR32_17850) - 3518803..3520044 (-) 1242 WP_000592994.1 pitrilysin family protein -
  JCR32_RS17945 (JCR32_17855) - 3520131..3521030 (-) 900 WP_000857421.1 polysaccharide deacetylase family protein -
  JCR32_RS17950 (JCR32_17860) pnp 3521183..3523321 (-) 2139 WP_000076750.1 polyribonucleotide nucleotidyltransferase -
  JCR32_RS17955 (JCR32_17865) rpsO 3523482..3523751 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  JCR32_RS17960 (JCR32_17870) ribF 3523852..3524823 (-) 972 WP_000766711.1 bifunctional riboflavin kinase/FAD synthetase -
  JCR32_RS17965 (JCR32_17875) truB 3524867..3525790 (-) 924 WP_000399343.1 tRNA pseudouridine(55) synthase TruB -
  JCR32_RS17970 (JCR32_17880) rbfA 3525877..3526233 (-) 357 WP_000776442.1 30S ribosome-binding factor RbfA -
  JCR32_RS17975 (JCR32_17885) - 3526249..3526530 (-) 282 WP_000582364.1 DUF503 family protein -
  JCR32_RS17980 (JCR32_17890) infB 3526527..3528587 (-) 2061 WP_000036341.1 translation initiation factor IF-2 -
  JCR32_RS17985 (JCR32_17895) - 3528592..3528903 (-) 312 WP_001286523.1 YlxQ family RNA-binding protein -
  JCR32_RS17990 (JCR32_17900) - 3528904..3529176 (-) 273 WP_000071128.1 YlxR family protein -
  JCR32_RS17995 (JCR32_17905) nusA 3529188..3530294 (-) 1107 WP_000102609.1 transcription termination factor NusA -
  JCR32_RS18000 (JCR32_17910) rimP 3530312..3530782 (-) 471 WP_000359097.1 ribosome maturation factor RimP -
  JCR32_RS18005 (JCR32_17915) - 3531115..3535416 (-) 4302 WP_000059985.1 PolC-type DNA polymerase III -
  JCR32_RS18010 (JCR32_17920) - 3535541..3537241 (-) 1701 WP_000814312.1 proline--tRNA ligase -
  JCR32_RS18015 (JCR32_17925) rseP 3537351..3538607 (-) 1257 WP_001090229.1 RIP metalloprotease RseP -
  JCR32_RS18020 (JCR32_17930) dxr 3538624..3539766 (-) 1143 WP_000790359.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  JCR32_RS18025 (JCR32_17935) cdsA 3539790..3540581 (-) 792 WP_000813583.1 phosphatidate cytidylyltransferase -
  JCR32_RS18030 (JCR32_17940) uppS 3540599..3541375 (-) 777 WP_000971301.1 isoprenyl transferase -
  JCR32_RS18035 (JCR32_17945) frr 3541461..3542018 (-) 558 WP_000531503.1 ribosome recycling factor -
  JCR32_RS18040 (JCR32_17950) pyrH 3542021..3542743 (-) 723 WP_000042663.1 UMP kinase -
  JCR32_RS18045 (JCR32_17955) tsf 3542810..3543697 (-) 888 WP_001018581.1 translation elongation factor Ts -
  JCR32_RS18050 (JCR32_17960) rpsB 3543801..3544502 (-) 702 WP_000111483.1 30S ribosomal protein S2 -
  JCR32_RS18055 (JCR32_17965) codY 3544854..3545633 (-) 780 WP_000421288.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  JCR32_RS18060 (JCR32_17970) hslU 3545711..3547102 (-) 1392 WP_074606248.1 ATP-dependent protease ATPase subunit HslU -
  JCR32_RS18065 (JCR32_17975) hslV 3547125..3547667 (-) 543 WP_000526271.1 ATP-dependent protease proteolytic subunit HslV -
  JCR32_RS18070 (JCR32_17980) xerC 3547710..3548609 (-) 900 WP_274430172.1 tyrosine recombinase XerC -
  JCR32_RS18075 (JCR32_17985) trmFO 3548675..3549979 (-) 1305 WP_002028254.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  JCR32_RS18080 (JCR32_17990) topA 3550030..3552108 (-) 2079 WP_001286972.1 type I DNA topoisomerase -
  JCR32_RS18085 (JCR32_17995) dprA 3552253..3553122 (-) 870 WP_061131599.1 DNA-processing protein DprA -
  JCR32_RS18090 (JCR32_18000) sucD 3553210..3554112 (-) 903 WP_000115178.1 succinate--CoA ligase subunit alpha -
  JCR32_RS18095 (JCR32_18005) sucC 3554133..3555293 (-) 1161 WP_001020785.1 ADP-forming succinate--CoA ligase subunit beta -
  JCR32_RS18100 (JCR32_18010) rnhB 3555487..3556260 (-) 774 WP_274430173.1 ribonuclease HII -
  JCR32_RS18105 (JCR32_18015) ylqF 3556312..3557202 (-) 891 WP_000236698.1 ribosome biogenesis GTPase YlqF -
  JCR32_RS18110 (JCR32_18020) lepB 3557223..3557774 (-) 552 WP_000711857.1 signal peptidase I -
  JCR32_RS18115 (JCR32_18025) rplS 3557876..3558220 (-) 345 WP_001186516.1 50S ribosomal protein L19 -
  JCR32_RS18120 (JCR32_18030) trmD 3558367..3559101 (-) 735 WP_000686892.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  JCR32_RS18125 (JCR32_18035) rimM 3559101..3559616 (-) 516 WP_000170268.1 ribosome maturation factor RimM -
  JCR32_RS18130 (JCR32_18040) - 3559737..3559964 (-) 228 WP_000737398.1 KH domain-containing protein -
  JCR32_RS18135 (JCR32_18045) rpsP 3559979..3560251 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  JCR32_RS18140 (JCR32_18050) ffh 3560352..3561701 (-) 1350 WP_274430174.1 signal recognition particle protein -
  JCR32_RS18145 (JCR32_18055) - 3561714..3562046 (-) 333 WP_000891062.1 putative DNA-binding protein -
  JCR32_RS18150 (JCR32_18060) ftsY 3562180..3563169 (-) 990 WP_274430175.1 signal recognition particle-docking protein FtsY -

Sequence

Protein


Download         Length: 259 a.a.        Molecular weight: 28774.05 Da        Isoelectric Point: 4.7947

>NTDB_id=524812 JCR32_RS18055 WP_000421288.1 3544854..3545633(-) (codY) [Bacillus sp. HNR-4]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENKELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLHELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=524812 JCR32_RS18055 WP_000421288.1 3544854..3545633(-) (codY) [Bacillus sp. HNR-4]
ATGGAATTATTAGCAAAAACAAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCGAACGTATTCGTAGTAAGTCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAGAATGAGCGTATGAAACAAATGCTTGCAGAACGTCAATTCCCAGAAGAGTATACACAAAGCTTGTTC
AACATTACAGAAACATCTTCAAACTTAGATGTAAACAGTGCTTACACAGCATTCCCAGTAGAAAATAAAGAATTATTTGG
TCAAGGTTTAACTACAATCGTACCGATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTTTTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATTCTTGCTGAGTACAGCTCAACTGTTGTAGGTATGGAAATTTTACGTGAAAAAGCAGAA
GAAATCGAAGAAGAAGCACGTAGCAAAGCTGTTGTTCAAATGGCGATCAGCTCATTATCTTACAGTGAATTAGAAGCAAT
CGAGCACATCTTCGAAGAATTAAACGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGACCGCGTAGGAATCACTC
GTTCGGTAATCGTAAATGCACTTCGTAAATTAGAAAGTGCTGGTGTAATTGAGTCGCGTTCTTTAGGTATGAAAGGAACA
TACATTAAAGTATTAAACGACAAATTCTTACATGAACTTGCTAAATTAAAAACAAACTAA

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 Q81WK7

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

46.667

98.456

0.459