Detailed information    

insolico Bioinformatically predicted

Overview

Name   codY   Type   Regulator
Locus tag   EUC40_RS07935 Genome accession   NZ_CP040336
Coordinates   1515918..1516697 (+) Length   259 a.a.
NCBI ID   WP_000421290.1    Uniprot ID   A0A9W5VKA1
Organism   Bacillus luti strain FJ     
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 1477022..1532138 1515918..1516697 within 0


Gene organization within MGE regions


Location: 1477022..1532138
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EUC40_RS07745 rsmB 1477244..1478578 (+) 1335 WP_071713219.1 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB -
  EUC40_RS07750 rlmN 1478583..1479671 (+) 1089 WP_000450551.1 23S rRNA (adenine(2503)-C(2))-methyltransferase RlmN -
  EUC40_RS07755 - 1479676..1480428 (+) 753 WP_000648687.1 Stp1/IreP family PP2C-type Ser/Thr phosphatase -
  EUC40_RS07760 prkC 1480437..1482410 (+) 1974 WP_071713220.1 serine/threonine protein kinase PrkC -
  EUC40_RS07765 rsgA 1482680..1483561 (+) 882 WP_156574302.1 ribosome small subunit-dependent GTPase A -
  EUC40_RS07770 rpe 1483564..1484208 (+) 645 WP_071713222.1 ribulose-phosphate 3-epimerase -
  EUC40_RS07775 - 1484307..1484987 (+) 681 WP_156574304.1 thiamine diphosphokinase -
  EUC40_RS07780 spoVM 1485054..1485134 (+) 81 WP_001213599.1 stage V sporulation protein SpoVM -
  EUC40_RS07785 rpmB 1485208..1485396 (-) 189 WP_000124776.1 50S ribosomal protein L28 -
  EUC40_RS07790 - 1485772..1486134 (+) 363 WP_000021109.1 Asp23/Gls24 family envelope stress response protein -
  EUC40_RS07795 - 1486157..1487833 (+) 1677 WP_071713224.1 DAK2 domain-containing protein -
  EUC40_RS07800 recG 1488125..1490173 (+) 2049 WP_071713225.1 ATP-dependent DNA helicase RecG -
  EUC40_RS07805 fapR 1490262..1490855 (+) 594 WP_000747352.1 transcription factor FapR -
  EUC40_RS07810 plsX 1490852..1491844 (+) 993 WP_000684089.1 phosphate acyltransferase PlsX -
  EUC40_RS07815 fabD 1491859..1492803 (+) 945 WP_088230135.1 ACP S-malonyltransferase -
  EUC40_RS07820 fabG 1492803..1493543 (+) 741 WP_071713227.1 3-oxoacyl-[acyl-carrier-protein] reductase -
  EUC40_RS07825 acpP 1493613..1493846 (+) 234 WP_000786062.1 acyl carrier protein -
  EUC40_RS07830 rncS 1493905..1494642 (+) 738 WP_001146870.1 ribonuclease III -
  EUC40_RS07835 smc 1494790..1498359 (+) 3570 WP_071713228.1 chromosome segregation protein SMC -
  EUC40_RS07840 ftsY 1498374..1499363 (+) 990 WP_000007653.1 signal recognition particle-docking protein FtsY -
  EUC40_RS07845 - 1499497..1499829 (+) 333 WP_000891061.1 putative DNA-binding protein -
  EUC40_RS07850 ffh 1499842..1501191 (+) 1350 WP_000863460.1 signal recognition particle protein -
  EUC40_RS07855 rpsP 1501292..1501564 (+) 273 WP_000268750.1 30S ribosomal protein S16 -
  EUC40_RS07860 - 1501579..1501806 (+) 228 WP_000737393.1 KH domain-containing protein -
  EUC40_RS07865 rimM 1501927..1502442 (+) 516 WP_156574306.1 ribosome maturation factor RimM -
  EUC40_RS07870 trmD 1502442..1503176 (+) 735 WP_071713229.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  EUC40_RS07875 rplS 1503323..1503667 (+) 345 WP_001186515.1 50S ribosomal protein L19 -
  EUC40_RS07880 lepB 1503769..1504320 (+) 552 WP_071713230.1 signal peptidase I -
  EUC40_RS07885 ylqF 1504346..1505236 (+) 891 WP_000236694.1 ribosome biogenesis GTPase YlqF -
  EUC40_RS07890 - 1505292..1506065 (+) 774 WP_156574308.1 ribonuclease HII -
  EUC40_RS07895 sucC 1506259..1507419 (+) 1161 WP_001020788.1 ADP-forming succinate--CoA ligase subunit beta -
  EUC40_RS07900 sucD 1507439..1508341 (+) 903 WP_000115179.1 succinate--CoA ligase subunit alpha -
  EUC40_RS07905 dprA 1508429..1509298 (+) 870 WP_156574310.1 DNA-processing protein DprA -
  EUC40_RS07910 topA 1509443..1511521 (+) 2079 WP_071713233.1 type I DNA topoisomerase -
  EUC40_RS07915 trmFO 1511572..1512876 (+) 1305 WP_000213004.1 FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO -
  EUC40_RS07920 xerC 1512942..1513841 (+) 900 WP_071713234.1 tyrosine recombinase XerC -
  EUC40_RS07925 hslV 1513884..1514426 (+) 543 WP_000526272.1 ATP-dependent protease proteolytic subunit HslV -
  EUC40_RS07930 hslU 1514449..1515840 (+) 1392 WP_071713235.1 ATP-dependent protease ATPase subunit HslU -
  EUC40_RS07935 codY 1515918..1516697 (+) 780 WP_000421290.1 GTP-sensing pleiotropic transcriptional regulator CodY Regulator
  EUC40_RS07940 rpsB 1517047..1517748 (+) 702 WP_000111485.1 30S ribosomal protein S2 -
  EUC40_RS07945 tsf 1517852..1518739 (+) 888 WP_001018582.1 translation elongation factor Ts -
  EUC40_RS07950 pyrH 1518806..1519528 (+) 723 WP_000042664.1 UMP kinase -
  EUC40_RS07955 frr 1519531..1520088 (+) 558 WP_000531503.1 ribosome recycling factor -
  EUC40_RS07960 uppS 1520174..1520950 (+) 777 WP_000971299.1 isoprenyl transferase -
  EUC40_RS07965 cdsA 1520968..1521759 (+) 792 WP_000813585.1 phosphatidate cytidylyltransferase -
  EUC40_RS07970 dxr 1521783..1522925 (+) 1143 WP_000790362.1 1-deoxy-D-xylulose-5-phosphate reductoisomerase -
  EUC40_RS07975 rseP 1522942..1524198 (+) 1257 WP_001090247.1 RIP metalloprotease RseP -
  EUC40_RS07980 - 1524308..1526008 (+) 1701 WP_071713237.1 proline--tRNA ligase -
  EUC40_RS07985 - 1526133..1530434 (+) 4302 WP_071713238.1 PolC-type DNA polymerase III -
  EUC40_RS07990 rimP 1530767..1531237 (+) 471 WP_000359095.1 ribosome maturation factor RimP -

Sequence

Protein


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

>NTDB_id=363348 EUC40_RS07935 WP_000421290.1 1515918..1516697(+) (codY) [Bacillus luti strain FJ]
MELLAKTRKLNALLQSAAGKPVNFREMSDTMCEVIEANVFVVSRRGKLLGYAIHQQIENERMKQMLAERQFPEEYTQSLF
NITETSSNLDVNSAYTAFPVENRELFGQGLTTIVPIVGGGERLGTLVLARLGQEFLDDDLILAEYSSTVVGMEILREKAE
EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELNGTEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT
YIKVLNDKFLQELAKLKTN

Nucleotide


Download         Length: 780 bp        

>NTDB_id=363348 EUC40_RS07935 WP_000421290.1 1515918..1516697(+) (codY) [Bacillus luti strain FJ]
ATGGAATTATTAGCAAAAACGAGAAAATTAAATGCGTTATTACAGAGCGCAGCAGGGAAGCCTGTAAACTTTAGAGAAAT
GTCTGACACAATGTGTGAAGTAATTGAAGCGAACGTATTCGTAGTAAGTCGTCGTGGTAAATTACTAGGTTATGCGATTC
ACCAACAAATCGAGAATGAGCGTATGAAACAAATGCTTGCTGAGCGTCAATTCCCAGAAGAATATACGCAAAGCTTATTC
AACATTACAGAAACATCTTCAAACTTAGATGTAAACAGTGCTTACACAGCATTCCCAGTAGAAAATAGAGAATTATTCGG
TCAAGGTTTAACTACAATCGTACCGATCGTTGGTGGCGGTGAGCGTCTAGGTACATTAGTATTAGCTCGTCTTGGTCAAG
AGTTCTTAGACGATGATTTAATCCTTGCTGAATACAGTTCAACTGTAGTAGGTATGGAAATCTTACGTGAAAAAGCAGAA
GAAATCGAAGAGGAAGCACGTAGTAAAGCTGTTGTTCAAATGGCGATTAGCTCATTATCTTACAGTGAGTTAGAAGCAAT
CGAGCATATCTTCGAAGAATTAAATGGAACAGAAGGTTTACTTGTTGCAAGTAAAATTGCTGATCGCGTAGGAATTACTC
GTTCTGTAATCGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTTATTGAATCTCGCTCTTTAGGTATGAAAGGAACA
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

Multiple sequence alignment