Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   VML59_RS17170 Genome accession   NZ_CP142003
Coordinates   3331814..3332593 (-) Length   259 a.a.
NCBI ID   WP_000421288.1    Uniprot ID   Q81WK7
Organism   Bacillus pacificus strain AT31     
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 3305194..3351226 3331814..3332593 within 0


Gene organization within MGE regions


Location: 3305194..3351226
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VML59_RS17050 - 3305388..3305639 (-) 252 WP_001239750.1 YlmC/YmxH family sporulation protein -
  VML59_RS17055 - 3305766..3307007 (-) 1242 WP_000592994.1 M16 family metallopeptidase -
  VML59_RS17060 - 3307094..3307993 (-) 900 WP_000857420.1 polysaccharide deacetylase family protein -
  VML59_RS17065 pnp 3308146..3310284 (-) 2139 WP_000076751.1 polyribonucleotide nucleotidyltransferase -
  VML59_RS17070 rpsO 3310445..3310714 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  VML59_RS17075 ribF 3310815..3311786 (-) 972 WP_000766721.1 bifunctional riboflavin kinase/FAD synthetase -
  VML59_RS17080 truB 3311830..3312753 (-) 924 WP_000399343.1 tRNA pseudouridine(55) synthase TruB -
  VML59_RS17085 rbfA 3312840..3313196 (-) 357 WP_000776443.1 30S ribosome-binding factor RbfA -
  VML59_RS17090 - 3313212..3313493 (-) 282 WP_000582364.1 DUF503 domain-containing protein -
  VML59_RS17095 infB 3313490..3315550 (-) 2061 WP_000036345.1 translation initiation factor IF-2 -
  VML59_RS17100 - 3315555..3315866 (-) 312 WP_001286523.1 YlxQ family RNA-binding protein -
  VML59_RS17105 rnpM 3315867..3316139 (-) 273 WP_000071128.1 RNase P modulator RnpM -
  VML59_RS17110 nusA 3316151..3317257 (-) 1107 WP_000102609.1 transcription termination factor NusA -
  VML59_RS17115 rimP 3317275..3317745 (-) 471 WP_000359097.1 ribosome maturation factor RimP -
  VML59_RS17120 - 3318078..3322379 (-) 4302 WP_049113048.1 PolC-type DNA polymerase III -
  VML59_RS17125 - 3322504..3324204 (-) 1701 WP_000814305.1 proline--tRNA ligase -
  VML59_RS17130 rseP 3324314..3325570 (-) 1257 WP_001090246.1 RIP metalloprotease RseP -
  VML59_RS17135 dxr 3325587..3326729 (-) 1143 WP_000790363.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  VML59_RS17140 cdsA 3326753..3327544 (-) 792 WP_000813586.1 phosphatidate cytidylyltransferase -
  VML59_RS17145 uppS 3327562..3328338 (-) 777 WP_000971300.1 isoprenyl transferase -
  VML59_RS17150 frr 3328424..3328981 (-) 558 WP_000531500.1 ribosome recycling factor -
  VML59_RS17155 pyrH 3328984..3329706 (-) 723 WP_000042663.1 UMP kinase -
  VML59_RS17160 tsf 3329773..3330660 (-) 888 WP_001018580.1 translation elongation factor Ts -
  VML59_RS17165 rpsB 3330764..3331465 (-) 702 WP_000111483.1 30S ribosomal protein S2 -
  VML59_RS17170 codY 3331814..3332593 (-) 780 WP_000421288.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  VML59_RS17175 hslU 3332671..3334062 (-) 1392 WP_000550081.1 ATP-dependent protease ATPase subunit HslU -
  VML59_RS17180 hslV 3334085..3334627 (-) 543 WP_000526271.1 ATP-dependent protease proteolytic subunit HslV -
  VML59_RS17185 xerC 3334670..3335569 (-) 900 WP_001101228.1 tyrosine recombinase XerC -
  VML59_RS17190 trmFO 3335635..3336939 (-) 1305 WP_002028254.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  VML59_RS17195 topA 3336990..3339068 (-) 2079 WP_001286972.1 type I DNA topoisomerase -
  VML59_RS17200 dprA 3339213..3340082 (-) 870 WP_000818028.1 DNA-processing protein DprA -
  VML59_RS17205 sucD 3340170..3341072 (-) 903 WP_000115178.1 succinate--CoA ligase subunit alpha -
  VML59_RS17210 sucC 3341092..3342252 (-) 1161 WP_001020785.1 ADP-forming succinate--CoA ligase subunit beta -
  VML59_RS17215 rnhB 3342446..3343219 (-) 774 WP_001174724.1 ribonuclease HII -
  VML59_RS17220 ylqF 3343271..3344161 (-) 891 WP_000236697.1 ribosome biogenesis GTPase YlqF -
  VML59_RS17225 lepB 3344182..3344733 (-) 552 WP_000711857.1 signal peptidase I -
  VML59_RS17230 rplS 3344835..3345179 (-) 345 WP_001186516.1 50S ribosomal protein L19 -
  VML59_RS17235 trmD 3345326..3346060 (-) 735 WP_000686892.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  VML59_RS17240 rimM 3346060..3346575 (-) 516 WP_000170268.1 ribosome maturation factor RimM -
  VML59_RS17245 - 3346697..3346924 (-) 228 WP_000737403.1 KH domain-containing protein -
  VML59_RS17250 rpsP 3346939..3347211 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  VML59_RS17255 ffh 3347312..3348661 (-) 1350 WP_000863461.1 signal recognition particle protein -
  VML59_RS17260 - 3348674..3349006 (-) 333 WP_000891062.1 putative DNA-binding protein -
  VML59_RS17265 ftsY 3349140..3350129 (-) 990 WP_000007647.1 signal recognition particle-docking protein FtsY -

Sequence

Protein


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

>NTDB_id=920815 VML59_RS17170 WP_000421288.1 3331814..3332593(-) (codY) [Bacillus pacificus strain AT31]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENKELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLHELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=920815 VML59_RS17170 WP_000421288.1 3331814..3332593(-) (codY) [Bacillus pacificus strain AT31]
ATGGAATTATTAGCAAAAACAAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCGAACGTATTCGTAGTAAGCCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATCGAGAATGAGCGTATGAAACAAATGCTTGCAGAGCGTCAATTCCCAGAAGAGTATACACAAAGCTTATTC
AACATTACAGAAACATCTTCAAACTTAGATGTAAACAGTGCTTACACAGCATTCCCAGTAGAAAATAAAGAATTATTTGG
TCAAGGCTTAACTACAATCGTACCGATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTTTTAGCTCGTCTTGGTCAAG
AGTTCTTAGATGATGATTTAATTCTTGCTGAGTACAGCTCAACTGTTGTAGGTATGGAAATTTTACGTGAAAAAGCAGAA
GAAATTGAAGAAGAAGCGCGTAGCAAAGCTGTTGTTCAAATGGCGATCAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCACATCTTCGAAGAATTAAACGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGACCGTGTAGGAATCACTC
GTTCGGTAATCGTAAATGCACTTCGTAAATTAGAAAGTGCTGGTGTAATTGAGTCACGTTCTTTAGGTATGAAAGGAACA
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