Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   DOU34_RS07095 Genome accession   NZ_CP030097
Coordinates   1390353..1391132 (+) Length   259 a.a.
NCBI ID   WP_003154263.1    Uniprot ID   I2C545
Organism   Bacillus amyloliquefaciens strain SH-B74     
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 1358554..1393626 1390353..1391132 within 0


Gene organization within MGE regions


Location: 1358554..1393626
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DOU34_RS06940 sdaAA 1359086..1359988 (+) 903 WP_007409756.1 L-serine ammonia-lyase, iron-sulfur-dependent, subunit alpha -
  DOU34_RS06945 recG 1359966..1362014 (+) 2049 WP_020955813.1 ATP-dependent DNA helicase RecG -
  DOU34_RS06950 fapR 1362121..1362687 (+) 567 WP_003154320.1 transcription factor FapR -
  DOU34_RS06955 plsX 1362701..1363699 (+) 999 WP_007409758.1 phosphate acyltransferase PlsX -
  DOU34_RS06960 fabD 1363718..1364671 (+) 954 WP_007409759.1 ACP S-malonyltransferase -
  DOU34_RS06965 fabG 1364664..1365404 (+) 741 WP_061046792.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  DOU34_RS06970 acpP 1365489..1365722 (+) 234 WP_003154310.1 acyl carrier protein -
  DOU34_RS06975 rncS 1365861..1366610 (+) 750 WP_007409760.1 ribonuclease III -
  DOU34_RS06980 smc 1366712..1370272 (+) 3561 WP_061046791.1 chromosome segregation protein SMC -
  DOU34_RS06985 ftsY 1370292..1371281 (+) 990 WP_003154301.1 signal recognition particle-docking protein FtsY -
  DOU34_RS06990 - 1371365..1372008 (+) 644 Protein_1356 phosphotransferase -
  DOU34_RS06995 - 1372130..1372462 (+) 333 WP_003154299.1 putative DNA-binding protein -
  DOU34_RS07000 ffh 1372476..1373816 (+) 1341 WP_007409763.1 signal recognition particle protein -
  DOU34_RS07005 rpsP 1373922..1374194 (+) 273 WP_003154296.1 30S ribosomal protein S16 -
  DOU34_RS07010 - 1374194..1374439 (+) 246 WP_007611392.1 KH domain-containing protein -
  DOU34_RS07015 - 1374530..1374916 (+) 387 WP_003154291.1 YlqD family protein -
  DOU34_RS07020 rimM 1374921..1375445 (+) 525 WP_003154290.1 ribosome maturation factor RimM -
  DOU34_RS07025 trmD 1375442..1376173 (+) 732 WP_007409764.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  DOU34_RS07030 rplS 1376314..1376661 (+) 348 WP_003154288.1 50S ribosomal protein L19 -
  DOU34_RS07035 ylqF 1376804..1377652 (+) 849 WP_007409766.1 ribosome biogenesis GTPase YlqF -
  DOU34_RS07040 - 1377725..1378492 (+) 768 WP_007611398.1 ribonuclease HII -
  DOU34_RS07045 - 1378509..1380212 (+) 1704 WP_061046790.1 hypothetical protein -
  DOU34_RS07050 - 1380209..1380490 (+) 282 WP_007409769.1 FlhB-like flagellar biosynthesis protein -
  DOU34_RS07055 sucC 1380665..1381822 (+) 1158 WP_003154283.1 ADP-forming succinate--CoA ligase subunit beta -
  DOU34_RS07060 sucD 1381851..1382753 (+) 903 WP_003154281.1 succinate--CoA ligase subunit alpha -
  DOU34_RS07065 dprA 1382819..1383718 (+) 900 WP_020955817.1 DNA-processing protein DprA Machinery gene
  DOU34_RS07070 topA 1383900..1385975 (+) 2076 WP_007409771.1 type I DNA topoisomerase -
  DOU34_RS07075 trmFO 1386040..1387347 (+) 1308 WP_012117550.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  DOU34_RS07080 xerC 1387417..1388334 (+) 918 WP_007409774.1 tyrosine recombinase XerC -
  DOU34_RS07085 hslV 1388350..1388895 (+) 546 WP_003154267.1 ATP-dependent protease subunit HslV -
  DOU34_RS07090 hslU 1388912..1390315 (+) 1404 WP_007611413.1 HslU--HslV peptidase ATPase subunit -
  DOU34_RS07095 codY 1390353..1391132 (+) 780 WP_003154263.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  DOU34_RS07100 flgB 1391486..1391875 (+) 390 WP_003154260.1 flagellar basal body rod protein FlgB -
  DOU34_RS07105 flgC 1391875..1392327 (+) 453 WP_007409776.1 flagellar basal body rod protein FlgC -
  DOU34_RS07110 fliE 1392338..1392658 (+) 321 WP_007409777.1 flagellar hook-basal body complex protein FliE -

Sequence

Protein


Download         Length: 259 a.a.        Molecular weight: 29056.24 Da        Isoelectric Point: 4.6017

>NTDB_id=299111 DOU34_RS07095 WP_003154263.1 1390353..1391132(+) (codY) [Bacillus amyloliquefaciens strain SH-B74]
MALLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLF
NVPETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNNKFLIELENLKSH

Nucleotide


Download         Length: 780 bp        

>NTDB_id=299111 DOU34_RS07095 WP_003154263.1 1390353..1391132(+) (codY) [Bacillus amyloliquefaciens strain SH-B74]
ATGGCTTTACTACAAAAAACACGAATTATTAACAGCATGCTGCAGGCTGCGGCAGGCAAACCCGTAAACTTTAAAGAAAT
GGCTGAAACGCTTCGTGACGTCATTGATTCTAATATTTTCGTCGTCAGCCGCAGAGGAAAGCTTTTGGGCTACTCTATTA
ATCAGCAGATTGAAAATGACCGCATGAAAAAAATGCTTGAAGACCGCCAGTTCCCGGAAGAGTACACGAGAAATCTGTTC
AATGTTCCGGAGACGTCTTCAAACCTTGATATCAACAGCGAATACACGGCGTTTCCTGTAGAAAACAGAGACCTGTTCCA
AGCGGGCTTAACAACGATCGTGCCGATCATCGGCGGAGGAGAGAGACTGGGCACGCTCATTCTGTCCCGTCTGCAGGATC
AATTTGAAGATGATGATCTCATTCTTGCTGAATACGGAGCAACCGTTGTAGGAATGGAGATTTTAAGAGAAAAAGCGGAA
GAAATCGAAGAAGAGGCGCGAAGCAAAGCGGTTGTTCAAATGGCGATCAGTTCTCTGTCTTACAGTGAACTTGAAGCGAT
TGAGCATATCTTTGAAGAGCTTGACGGAAACGAAGGCTTGCTTGTGGCAAGTAAGATTGCCGACCGTGTCGGCATTACGC
GTTCAGTAATCGTTAATGCGCTGAGAAAGCTGGAAAGCGCAGGTGTCATTGAATCCAGATCACTAGGAATGAAGGGGACG
TACATTAAAGTTCTGAACAACAAATTCCTTATTGAATTGGAAAACCTTAAATCTCATTAA

Domains

Predicted by InterproScan.

CodY GAF-like domain (CodY)

(3-178)

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 I2C545

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

99.228

100

0.992
  codY Lactococcus lactis subsp. lactis strain DGCC12653

47.843

98.456

0.471

Multiple sequence alignment