Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   R6Y98_RS18945 Genome accession   NZ_CP137767
Coordinates   3731228..3732007 (-) Length   259 a.a.
NCBI ID   WP_000421290.1    Uniprot ID   A0A9W5VKA1
Organism   Bacillus cereus strain GUCC 3     
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 3715782..3770847 3731228..3732007 within 0


Gene organization within MGE regions


Location: 3715782..3770847
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R6Y98_RS18890 (R6Y98_18890) rimP 3716684..3717154 (-) 471 WP_000359096.1 ribosome maturation factor RimP -
  R6Y98_RS18895 (R6Y98_18895) - 3717491..3721792 (-) 4302 WP_000060005.1 PolC-type DNA polymerase III -
  R6Y98_RS18900 (R6Y98_18900) - 3721917..3723617 (-) 1701 WP_000814297.1 proline--tRNA ligase -
  R6Y98_RS18905 (R6Y98_18905) rseP 3723727..3724983 (-) 1257 WP_001090243.1 RIP metalloprotease RseP -
  R6Y98_RS18910 (R6Y98_18910) dxr 3725001..3726143 (-) 1143 WP_000790378.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  R6Y98_RS18915 (R6Y98_18915) cdsA 3726167..3726958 (-) 792 WP_000813592.1 phosphatidate cytidylyltransferase -
  R6Y98_RS18920 (R6Y98_18920) uppS 3726976..3727752 (-) 777 WP_000971296.1 isoprenyl transferase -
  R6Y98_RS18925 (R6Y98_18925) frr 3727838..3728395 (-) 558 WP_000531501.1 ribosome recycling factor -
  R6Y98_RS18930 (R6Y98_18930) pyrH 3728398..3729120 (-) 723 WP_000042668.1 UMP kinase -
  R6Y98_RS18935 (R6Y98_18935) tsf 3729187..3730074 (-) 888 WP_001018578.1 translation elongation factor Ts -
  R6Y98_RS18940 (R6Y98_18940) rpsB 3730178..3730879 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  R6Y98_RS18945 (R6Y98_18945) codY 3731228..3732007 (-) 780 WP_000421290.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  R6Y98_RS18950 (R6Y98_18950) hslU 3732085..3733476 (-) 1392 WP_000550087.1 ATP-dependent protease ATPase subunit HslU -
  R6Y98_RS18955 (R6Y98_18955) hslV 3733499..3734041 (-) 543 WP_000526272.1 ATP-dependent protease proteolytic subunit HslV -
  R6Y98_RS18960 (R6Y98_18960) xerC 3734084..3734983 (-) 900 WP_001101251.1 tyrosine recombinase XerC -
  R6Y98_RS18965 (R6Y98_18965) trmFO 3735049..3736353 (-) 1305 WP_000213002.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  R6Y98_RS18970 (R6Y98_18970) topA 3736402..3738480 (-) 2079 WP_001286960.1 type I DNA topoisomerase -
  R6Y98_RS18975 (R6Y98_18975) dprA 3738625..3739494 (-) 870 WP_000818039.1 DNA-processing protein DprA -
  R6Y98_RS18980 (R6Y98_18980) sucD 3739582..3740484 (-) 903 WP_000115178.1 succinate--CoA ligase subunit alpha -
  R6Y98_RS18985 (R6Y98_18985) sucC 3740504..3741664 (-) 1161 WP_001020791.1 ADP-forming succinate--CoA ligase subunit beta -
  R6Y98_RS18990 (R6Y98_18990) - 3741859..3742632 (-) 774 WP_001194267.1 ribonuclease HII -
  R6Y98_RS18995 (R6Y98_18995) ylqF 3742689..3743579 (-) 891 WP_000236702.1 ribosome biogenesis GTPase YlqF -
  R6Y98_RS19000 (R6Y98_19000) lepB 3743600..3744151 (-) 552 WP_000711853.1 signal peptidase I -
  R6Y98_RS19005 (R6Y98_19005) rplS 3744253..3744597 (-) 345 WP_001186516.1 50S ribosomal protein L19 -
  R6Y98_RS19010 (R6Y98_19010) trmD 3744744..3745478 (-) 735 WP_000686904.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  R6Y98_RS19015 (R6Y98_19015) rimM 3745478..3745993 (-) 516 WP_000170278.1 ribosome maturation factor RimM -
  R6Y98_RS19020 (R6Y98_19020) - 3746114..3746341 (-) 228 WP_000737401.1 KH domain-containing protein -
  R6Y98_RS19025 (R6Y98_19025) rpsP 3746356..3746628 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  R6Y98_RS19030 (R6Y98_19030) ffh 3746730..3748079 (-) 1350 WP_000863460.1 signal recognition particle protein -
  R6Y98_RS19035 (R6Y98_19035) - 3748092..3748424 (-) 333 WP_000891062.1 putative DNA-binding protein -
  R6Y98_RS19040 (R6Y98_19040) ftsY 3748558..3749547 (-) 990 WP_318588462.1 signal recognition particle-docking protein FtsY -
  R6Y98_RS19045 (R6Y98_19045) smc 3749563..3753132 (-) 3570 WP_000479004.1 chromosome segregation protein SMC -
  R6Y98_RS19050 (R6Y98_19050) rncS 3753279..3754016 (-) 738 WP_001146875.1 ribonuclease III -
  R6Y98_RS19055 (R6Y98_19055) acpP 3754075..3754308 (-) 234 WP_000786062.1 acyl carrier protein -
  R6Y98_RS19060 (R6Y98_19060) fabG 3754378..3755118 (-) 741 WP_000911769.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  R6Y98_RS19065 (R6Y98_19065) fabD 3755118..3756062 (-) 945 WP_000515910.1 ACP S-malonyltransferase -
  R6Y98_RS19070 (R6Y98_19070) plsX 3756077..3757069 (-) 993 WP_000684100.1 phosphate acyltransferase PlsX -
  R6Y98_RS19075 (R6Y98_19075) fapR 3757066..3757659 (-) 594 WP_000747349.1 transcription factor FapR -
  R6Y98_RS19080 (R6Y98_19080) recG 3757748..3759796 (-) 2049 WP_001000815.1 ATP-dependent DNA helicase RecG -
  R6Y98_RS19085 (R6Y98_19085) - 3760087..3761763 (-) 1677 WP_000027127.1 DAK2 domain-containing protein -
  R6Y98_RS19090 (R6Y98_19090) - 3761786..3762148 (-) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  R6Y98_RS19095 (R6Y98_19095) rpmB 3762525..3762713 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  R6Y98_RS19100 (R6Y98_19100) spoVM 3762787..3762867 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  R6Y98_RS19105 (R6Y98_19105) - 3762934..3763614 (-) 681 WP_002005613.1 thiamine diphosphokinase -
  R6Y98_RS19110 (R6Y98_19110) rpe 3763684..3764328 (-) 645 WP_000589974.1 ribulose-phosphate 3-epimerase -
  R6Y98_RS19115 (R6Y98_19115) rsgA 3764331..3765212 (-) 882 WP_001113933.1 ribosome small subunit-dependent GTPase A -
  R6Y98_RS19120 (R6Y98_19120) pknB 3765459..3767432 (-) 1974 WP_000904749.1 Stk1 family PASTA domain-containing Ser/Thr kinase -
  R6Y98_RS19125 (R6Y98_19125) - 3767441..3768193 (-) 753 WP_000648703.1 Stp1/IreP family PP2C-type Ser/Thr phosphatase -
  R6Y98_RS19130 (R6Y98_19130) rlmN 3768198..3769286 (-) 1089 WP_000450541.1 23S rRNA (adenine(2503)-C(2))-methyltransferase RlmN -
  R6Y98_RS19135 (R6Y98_19135) rsmB 3769291..3770625 (-) 1335 WP_001249682.1 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB -

Sequence

Protein


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

>NTDB_id=900670 R6Y98_RS18945 WP_000421290.1 3731228..3732007(-) (codY) [Bacillus cereus strain GUCC 3]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=900670 R6Y98_RS18945 WP_000421290.1 3731228..3732007(-) (codY) [Bacillus cereus strain GUCC 3]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGGAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCAAACGTATTCGTAGTTAGCCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAAAACGAACGCATGAAGCAAATGCTTGCAGAACGTCAATTCCCAGAAGAATATACACAAAGCTTATTC
AACATTACAGAAACATCTTCAAACTTAGATGTGAACAGTGCTTACACAGCATTCCCAGTAGAAAACAGAGAATTATTTGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATCCTTGCTGAGTACAGCTCAACTGTTGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCAATCAGCTCATTATCTTACAGTGAGTTAGAAGCGAT
TGAGCACATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTAGGAATTACTC
GTTCTGTAATCGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTTATTGAGTCTCGTTCTTTAGGTATGAAAGGAACA
TACATTAAAGTGCTAAACGACAAGTTTCTACAGGAACTTGCTAAATTAAAAACAAACTAA

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