Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   Q2U85_RS20045 Genome accession   NZ_CP130335
Coordinates   3924312..3925091 (-) Length   259 a.a.
NCBI ID   WP_000421290.1    Uniprot ID   A0A9W5VKA1
Organism   Bacillus cereus strain DW444     
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 3908866..3963928 3924312..3925091 within 0


Gene organization within MGE regions


Location: 3908866..3963928
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Q2U85_RS19990 (Q2U85_19990) rimP 3909768..3910238 (-) 471 WP_000359096.1 ribosome maturation factor RimP -
  Q2U85_RS19995 (Q2U85_19995) - 3910575..3914876 (-) 4302 WP_000060005.1 PolC-type DNA polymerase III -
  Q2U85_RS20000 (Q2U85_20000) - 3915001..3916701 (-) 1701 WP_088066521.1 proline--tRNA ligase -
  Q2U85_RS20005 (Q2U85_20005) rseP 3916811..3918067 (-) 1257 WP_001090245.1 RIP metalloprotease RseP -
  Q2U85_RS20010 (Q2U85_20010) dxr 3918085..3919227 (-) 1143 WP_000790372.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  Q2U85_RS20015 (Q2U85_20015) cdsA 3919251..3920042 (-) 792 WP_000813594.1 phosphatidate cytidylyltransferase -
  Q2U85_RS20020 (Q2U85_20020) uppS 3920060..3920836 (-) 777 WP_153587751.1 isoprenyl transferase -
  Q2U85_RS20025 (Q2U85_20025) frr 3920922..3921479 (-) 558 WP_000531501.1 ribosome recycling factor -
  Q2U85_RS20030 (Q2U85_20030) pyrH 3921482..3922204 (-) 723 WP_000042668.1 UMP kinase -
  Q2U85_RS20035 (Q2U85_20035) tsf 3922271..3923158 (-) 888 WP_001018578.1 translation elongation factor Ts -
  Q2U85_RS20040 (Q2U85_20040) rpsB 3923262..3923963 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  Q2U85_RS20045 (Q2U85_20045) codY 3924312..3925091 (-) 780 WP_000421290.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  Q2U85_RS20050 (Q2U85_20050) hslU 3925169..3926560 (-) 1392 WP_000550087.1 ATP-dependent protease ATPase subunit HslU -
  Q2U85_RS20055 (Q2U85_20055) hslV 3926583..3927125 (-) 543 WP_000526272.1 ATP-dependent protease proteolytic subunit HslV -
  Q2U85_RS20060 (Q2U85_20060) xerC 3927168..3928067 (-) 900 WP_001101241.1 tyrosine recombinase XerC -
  Q2U85_RS20065 (Q2U85_20065) trmFO 3928133..3929437 (-) 1305 WP_000213002.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  Q2U85_RS20070 (Q2U85_20070) topA 3929486..3931564 (-) 2079 WP_001286963.1 type I DNA topoisomerase -
  Q2U85_RS20075 (Q2U85_20075) dprA 3931709..3932578 (-) 870 WP_088066515.1 DNA-processing protein DprA -
  Q2U85_RS20080 (Q2U85_20080) sucD 3932666..3933568 (-) 903 WP_000115178.1 succinate--CoA ligase subunit alpha -
  Q2U85_RS20085 (Q2U85_20085) sucC 3933588..3934748 (-) 1161 WP_097796326.1 ADP-forming succinate--CoA ligase subunit beta -
  Q2U85_RS20090 (Q2U85_20090) - 3934943..3935716 (-) 774 WP_088066513.1 ribonuclease HII -
  Q2U85_RS20095 (Q2U85_20095) ylqF 3935773..3936663 (-) 891 WP_000236702.1 ribosome biogenesis GTPase YlqF -
  Q2U85_RS20100 (Q2U85_20100) lepB 3936684..3937235 (-) 552 WP_153587752.1 signal peptidase I -
  Q2U85_RS20105 (Q2U85_20105) rplS 3937337..3937681 (-) 345 WP_001186516.1 50S ribosomal protein L19 -
  Q2U85_RS20110 (Q2U85_20110) trmD 3937828..3938562 (-) 735 WP_000686903.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  Q2U85_RS20115 (Q2U85_20115) rimM 3938562..3939077 (-) 516 WP_000170278.1 ribosome maturation factor RimM -
  Q2U85_RS20120 (Q2U85_20120) - 3939198..3939425 (-) 228 WP_000737401.1 KH domain-containing protein -
  Q2U85_RS20125 (Q2U85_20125) rpsP 3939440..3939712 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  Q2U85_RS20130 (Q2U85_20130) ffh 3939814..3941163 (-) 1350 WP_000863460.1 signal recognition particle protein -
  Q2U85_RS20135 (Q2U85_20135) - 3941176..3941508 (-) 333 WP_000891062.1 putative DNA-binding protein -
  Q2U85_RS20140 (Q2U85_20140) ftsY 3941642..3942631 (-) 990 WP_000007655.1 signal recognition particle-docking protein FtsY -
  Q2U85_RS20145 (Q2U85_20145) smc 3942647..3946216 (-) 3570 WP_258112942.1 chromosome segregation protein SMC -
  Q2U85_RS20150 (Q2U85_20150) rncS 3946363..3947100 (-) 738 WP_001146875.1 ribonuclease III -
  Q2U85_RS20155 (Q2U85_20155) acpP 3947159..3947392 (-) 234 WP_000786062.1 acyl carrier protein -
  Q2U85_RS20160 (Q2U85_20160) fabG 3947462..3948202 (-) 741 WP_000911773.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  Q2U85_RS20165 (Q2U85_20165) fabD 3948202..3949146 (-) 945 WP_153587753.1 ACP S-malonyltransferase -
  Q2U85_RS20170 (Q2U85_20170) plsX 3949161..3950153 (-) 993 WP_000684100.1 phosphate acyltransferase PlsX -
  Q2U85_RS20175 (Q2U85_20175) fapR 3950150..3950743 (-) 594 WP_000747349.1 transcription factor FapR -
  Q2U85_RS20180 (Q2U85_20180) recG 3950832..3952880 (-) 2049 WP_001000813.1 ATP-dependent DNA helicase RecG -
  Q2U85_RS20185 (Q2U85_20185) - 3953171..3954847 (-) 1677 WP_000027129.1 DAK2 domain-containing protein -
  Q2U85_RS20190 (Q2U85_20190) - 3954870..3955232 (-) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  Q2U85_RS20195 (Q2U85_20195) rpmB 3955609..3955797 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  Q2U85_RS20200 (Q2U85_20200) spoVM 3955871..3955951 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  Q2U85_RS20205 (Q2U85_20205) - 3956018..3956698 (-) 681 WP_000752663.1 thiamine diphosphokinase -
  Q2U85_RS20210 (Q2U85_20210) rpe 3956768..3957412 (-) 645 WP_000589974.1 ribulose-phosphate 3-epimerase -
  Q2U85_RS20215 (Q2U85_20215) rsgA 3957415..3958296 (-) 882 WP_001113932.1 ribosome small subunit-dependent GTPase A -
  Q2U85_RS20220 (Q2U85_20220) pknB 3958540..3960513 (-) 1974 WP_058840176.1 Stk1 family PASTA domain-containing Ser/Thr kinase -
  Q2U85_RS20225 (Q2U85_20225) - 3960522..3961274 (-) 753 WP_000648703.1 Stp1/IreP family PP2C-type Ser/Thr phosphatase -
  Q2U85_RS20230 (Q2U85_20230) rlmN 3961279..3962367 (-) 1089 WP_000450541.1 23S rRNA (adenine(2503)-C(2))-methyltransferase RlmN -
  Q2U85_RS20235 (Q2U85_20235) rsmB 3962372..3963706 (-) 1335 WP_001249666.1 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=858002 Q2U85_RS20045 WP_000421290.1 3924312..3925091(-) (codY) [Bacillus cereus strain DW444]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=858002 Q2U85_RS20045 WP_000421290.1 3924312..3925091(-) (codY) [Bacillus cereus strain DW444]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGGAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCAAACGTATTCGTAGTTAGCCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAAAACGAACGCATGAAGCAAATGCTTGCAGAACGTCAATTCCCAGAAGAATATACACAAAGCTTATTC
AACATTACAGAAACATCTTCAAACTTAGATGTGAACAGTGCTTACACAGCATTCCCAGTAGAAAACAGAGAATTATTTGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATCCTTGCTGAGTACAGCTCAACTGTTGTAGGTATGGAAATTTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATCAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
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