Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   GSN03_RS18235 Genome accession   NZ_CP047366
Coordinates   3586667..3587446 (-) Length   259 a.a.
NCBI ID   WP_000421290.1    Uniprot ID   A0A9W5VKA1
Organism   Bacillus nitratireducens strain BM02     
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 3559415..3621319 3586667..3587446 within 0


Gene organization within MGE regions


Location: 3559415..3621319
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GSN03_RS18115 (GSN03_17950) - 3560215..3560466 (-) 252 WP_071746772.1 YlmC/YmxH family sporulation protein -
  GSN03_RS18120 (GSN03_17955) - 3560599..3561840 (-) 1242 WP_212087852.1 M16 family metallopeptidase -
  GSN03_RS18125 (GSN03_17960) - 3561927..3562826 (-) 900 WP_212087854.1 polysaccharide deacetylase family protein -
  GSN03_RS18130 (GSN03_17965) pnp 3562983..3565121 (-) 2139 WP_000076732.1 polyribonucleotide nucleotidyltransferase -
  GSN03_RS18135 (GSN03_17970) rpsO 3565283..3565552 (-) 270 WP_001229392.1 30S ribosomal protein S15 -
  GSN03_RS18140 (GSN03_17975) ribF 3565653..3566624 (-) 972 WP_000766724.1 bifunctional riboflavin kinase/FAD synthetase -
  GSN03_RS18145 (GSN03_17980) truB 3566668..3567591 (-) 924 WP_000399333.1 tRNA pseudouridine(55) synthase TruB -
  GSN03_RS18150 (GSN03_17985) rbfA 3567678..3568034 (-) 357 WP_000776443.1 30S ribosome-binding factor RbfA -
  GSN03_RS18155 (GSN03_17990) - 3568050..3568331 (-) 282 WP_000582364.1 DUF503 domain-containing protein -
  GSN03_RS18160 (GSN03_17995) infB 3568328..3570397 (-) 2070 WP_212087856.1 translation initiation factor IF-2 -
  GSN03_RS18165 (GSN03_18000) - 3570402..3570713 (-) 312 WP_001286519.1 YlxQ family RNA-binding protein -
  GSN03_RS18170 (GSN03_18005) rnpM 3570714..3570986 (-) 273 WP_000071123.1 RNase P modulator RnpM -
  GSN03_RS18175 (GSN03_18010) nusA 3570998..3572104 (-) 1107 WP_000102601.1 transcription termination factor NusA -
  GSN03_RS18180 (GSN03_18015) rimP 3572122..3572592 (-) 471 WP_000359098.1 ribosome maturation factor RimP -
  GSN03_RS18185 (GSN03_18020) - 3572926..3577227 (-) 4302 WP_212087858.1 PolC-type DNA polymerase III -
  GSN03_RS18190 (GSN03_18025) - 3577352..3579052 (-) 1701 WP_000814329.1 proline--tRNA ligase -
  GSN03_RS18195 (GSN03_18030) rseP 3579162..3580418 (-) 1257 WP_001090226.1 RIP metalloprotease RseP -
  GSN03_RS18200 (GSN03_18035) dxr 3580436..3581578 (-) 1143 WP_000790382.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  GSN03_RS18205 (GSN03_18040) cdsA 3581602..3582393 (-) 792 WP_212087860.1 phosphatidate cytidylyltransferase -
  GSN03_RS18210 (GSN03_18045) uppS 3582411..3583187 (-) 777 WP_212087862.1 isoprenyl transferase -
  GSN03_RS18215 (GSN03_18050) frr 3583273..3583830 (-) 558 WP_000531505.1 ribosome recycling factor -
  GSN03_RS18220 (GSN03_18055) pyrH 3583833..3584555 (-) 723 WP_000042666.1 UMP kinase -
  GSN03_RS18225 (GSN03_18060) tsf 3584622..3585509 (-) 888 WP_001018584.1 translation elongation factor Ts -
  GSN03_RS18230 (GSN03_18065) rpsB 3585614..3586315 (-) 702 WP_000111485.1 30S ribosomal protein S2 -
  GSN03_RS18235 (GSN03_18070) codY 3586667..3587446 (-) 780 WP_000421290.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  GSN03_RS18240 (GSN03_18075) hslU 3587524..3588915 (-) 1392 WP_000550070.1 ATP-dependent protease ATPase subunit HslU -
  GSN03_RS18245 (GSN03_18080) hslV 3588938..3589480 (-) 543 WP_000526270.1 ATP-dependent protease proteolytic subunit HslV -
  GSN03_RS18250 (GSN03_18085) xerC 3589523..3590422 (-) 900 WP_001101233.1 tyrosine recombinase XerC -
  GSN03_RS18255 (GSN03_18090) trmFO 3590488..3591792 (-) 1305 WP_000213005.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  GSN03_RS18260 (GSN03_18095) topA 3591843..3593921 (-) 2079 WP_001286970.1 type I DNA topoisomerase -
  GSN03_RS18265 (GSN03_18100) dprA 3594066..3594935 (-) 870 WP_000818054.1 DNA-processing protein DprA -
  GSN03_RS18270 (GSN03_18105) sucD 3595024..3595926 (-) 903 WP_000115186.1 succinate--CoA ligase subunit alpha -
  GSN03_RS18275 (GSN03_18110) sucC 3595946..3597106 (-) 1161 WP_001020797.1 ADP-forming succinate--CoA ligase subunit beta -
  GSN03_RS18280 (GSN03_18115) - 3597307..3598074 (-) 768 WP_001171124.1 ribonuclease HII -
  GSN03_RS18285 (GSN03_18120) ylqF 3598131..3599021 (-) 891 WP_001007645.1 ribosome biogenesis GTPase YlqF -
  GSN03_RS18290 (GSN03_18125) lepB 3599042..3599593 (-) 552 WP_000711850.1 signal peptidase I -
  GSN03_RS18295 (GSN03_18130) rplS 3599695..3600039 (-) 345 WP_001186517.1 50S ribosomal protein L19 -
  GSN03_RS18300 (GSN03_18135) trmD 3600186..3600920 (-) 735 WP_212087864.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  GSN03_RS18305 (GSN03_18140) rimM 3600920..3601435 (-) 516 WP_212087866.1 ribosome maturation factor RimM -
  GSN03_RS18310 (GSN03_18145) - 3601557..3601784 (-) 228 WP_000737392.1 KH domain-containing protein -
  GSN03_RS18315 (GSN03_18150) rpsP 3601799..3602071 (-) 273 WP_000268750.1 30S ribosomal protein S16 -
  GSN03_RS18320 (GSN03_18155) ffh 3602173..3603522 (-) 1350 WP_000863455.1 signal recognition particle protein -
  GSN03_RS18325 (GSN03_18160) - 3603535..3603867 (-) 333 WP_000891062.1 putative DNA-binding protein -
  GSN03_RS18330 (GSN03_18165) ftsY 3604001..3604990 (-) 990 WP_212087868.1 signal recognition particle-docking protein FtsY -
  GSN03_RS18335 (GSN03_18170) smc 3605005..3608574 (-) 3570 WP_000478957.1 chromosome segregation protein SMC -
  GSN03_RS18340 (GSN03_18175) rncS 3608723..3609460 (-) 738 WP_001146869.1 ribonuclease III -
  GSN03_RS18345 (GSN03_18180) acpP 3609519..3609752 (-) 234 WP_000786062.1 acyl carrier protein -
  GSN03_RS18350 (GSN03_18185) fabG 3609822..3610562 (-) 741 WP_212087870.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  GSN03_RS18355 (GSN03_18190) fabD 3610562..3611506 (-) 945 WP_000516964.1 ACP S-malonyltransferase -
  GSN03_RS18360 (GSN03_18195) plsX 3611521..3612513 (-) 993 WP_000684105.1 phosphate acyltransferase PlsX -
  GSN03_RS18365 (GSN03_18200) fapR 3612510..3613103 (-) 594 WP_000747352.1 transcription factor FapR -
  GSN03_RS18370 (GSN03_18205) recG 3613192..3615240 (-) 2049 WP_044737554.1 ATP-dependent DNA helicase RecG -
  GSN03_RS18375 (GSN03_18210) - 3615707..3617383 (-) 1677 WP_000027116.1 DAK2 domain-containing protein -
  GSN03_RS18380 (GSN03_18215) - 3617406..3617768 (-) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  GSN03_RS18385 (GSN03_18220) rpmB 3618145..3618333 (+) 189 WP_000124776.1 50S ribosomal protein L28 -
  GSN03_RS18390 (GSN03_18225) spoVM 3618407..3618487 (-) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  GSN03_RS18395 (GSN03_18230) - 3618554..3619234 (-) 681 WP_212087872.1 thiamine diphosphokinase -
  GSN03_RS18400 (GSN03_18235) rpe 3619335..3619979 (-) 645 WP_000589964.1 ribulose-phosphate 3-epimerase -
  GSN03_RS18405 (GSN03_18240) rsgA 3619982..3620863 (-) 882 WP_001113940.1 ribosome small subunit-dependent GTPase A -

Sequence

Protein


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

>NTDB_id=413042 GSN03_RS18235 WP_000421290.1 3586667..3587446(-) (codY) [Bacillus nitratireducens strain BM02]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=413042 GSN03_RS18235 WP_000421290.1 3586667..3587446(-) (codY) [Bacillus nitratireducens strain BM02]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGAAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATCGAAGCGAACGTATTCGTAGTAAGCCGTCGTGGTAAATTACTAGGTTATGCAATTC
ACCAACAAATTGAGAATGAGCGTATGAAACAAATGCTTGCAGAGCGTCAATTCCCGGAAGAATACACACAAAGCTTATTC
AACATTACAGAAACATCTTCTAACTTAGATGTAAACAGTGCTTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCAATCGTTGGTGGCGGTGAGCGTCTAGGCACATTAGTGTTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATCCTTGCTGAATACAGTTCAACTGTAGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTCGCAAGTAAAATTGCTGATCGCGTAGGAATTACTC
GTTCTGTAATCGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTTATTGAGTCTCGTTCTTTAGGTATGAAAGGAACA
TACATTAAAGTACTAAACGACAAGTTTCTACAGGAACTTGCTAAATTAAAAACAAACTAA

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

Multiple sequence alignment