Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   GU336_RS11070 Genome accession   NZ_CP047616
Coordinates   2251536..2252897 (-) Length   453 a.a.
NCBI ID   WP_096039573.1    Uniprot ID   A0A290PX25
Organism   Lactococcus raffinolactis strain Lr_19_5     
Function   homologous recombination (predicted from homology)   
Homologous recombination

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 2226184..2264602 2251536..2252897 within 0


Gene organization within MGE regions


Location: 2226184..2264602
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GU336_RS10955 (GU336_10945) - 2226272..2226973 (-) 702 WP_167839068.1 hypothetical protein -
  GU336_RS10960 (GU336_10950) - 2227058..2228008 (+) 951 WP_068164079.1 IS30 family transposase -
  GU336_RS10965 (GU336_10955) frr 2228276..2228833 (-) 558 WP_061774678.1 ribosome recycling factor -
  GU336_RS10970 (GU336_10960) pyrH 2228864..2229583 (-) 720 WP_061774677.1 UMP kinase -
  GU336_RS10975 (GU336_10965) - 2229823..2231016 (-) 1194 WP_096039558.1 acetate kinase -
  GU336_RS10980 (GU336_10970) comYH 2231325..2232260 (-) 936 WP_167372300.1 class I SAM-dependent methyltransferase Machinery gene
  GU336_RS10985 (GU336_10975) - 2232422..2232910 (-) 489 WP_167839069.1 GNAT family N-acetyltransferase -
  GU336_RS10990 (GU336_10980) murC 2233011..2234345 (-) 1335 WP_138492113.1 UDP-N-acetylmuramate--L-alanine ligase -
  GU336_RS10995 (GU336_10985) - 2234614..2235225 (-) 612 WP_138492112.1 hypothetical protein -
  GU336_RS11000 (GU336_10990) - 2235361..2238474 (-) 3114 WP_096039562.1 DEAD/DEAH box helicase -
  GU336_RS11005 (GU336_10995) - 2238740..2239744 (-) 1005 WP_138492110.1 serine hydrolase domain-containing protein -
  GU336_RS11010 (GU336_11000) - 2239741..2240409 (-) 669 WP_167839070.1 CppA N-terminal domain-containing protein -
  GU336_RS11015 (GU336_11005) - 2240680..2241390 (+) 711 WP_061774669.1 type II CAAX endopeptidase family protein -
  GU336_RS11020 (GU336_11010) gla 2241475..2242374 (-) 900 WP_167839071.1 aquaglyceroporin Gla -
  GU336_RS11025 (GU336_11015) - 2242645..2244957 (+) 2313 WP_167839072.1 Xaa-Pro dipeptidyl-peptidase -
  GU336_RS11030 (GU336_11020) - 2244954..2245676 (+) 723 WP_167839073.1 gamma-glutamyl-gamma-aminobutyrate hydrolase family protein -
  GU336_RS11035 (GU336_11025) - 2245895..2246026 (-) 132 WP_096039567.1 putative holin-like toxin -
  GU336_RS11040 (GU336_11030) - 2246187..2246675 (-) 489 WP_167839074.1 GNAT family N-acetyltransferase -
  GU336_RS11045 (GU336_11035) gltX 2246678..2248126 (-) 1449 WP_096039569.1 glutamate--tRNA ligase -
  GU336_RS11050 (GU336_11040) ispF 2248271..2248753 (-) 483 WP_096039570.1 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase -
  GU336_RS11055 (GU336_11045) - 2248740..2249501 (-) 762 WP_061774662.1 TIGR00266 family protein -
  GU336_RS11060 (GU336_11050) ispD 2249557..2250237 (-) 681 WP_096039571.1 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase -
  GU336_RS11065 (GU336_11055) - 2250234..2251307 (-) 1074 WP_167839075.1 TRAM domain-containing protein -
  GU336_RS11070 (GU336_11060) radA 2251536..2252897 (-) 1362 WP_096039573.1 DNA repair protein RadA Machinery gene
  GU336_RS11075 (GU336_11065) - 2252899..2253345 (-) 447 WP_061774658.1 dUTP diphosphatase -
  GU336_RS11080 (GU336_11070) - 2253428..2255179 (-) 1752 WP_167839076.1 ABC transporter ATP-binding protein -
  GU336_RS11085 (GU336_11075) - 2255172..2256890 (-) 1719 WP_167839077.1 ABC transporter ATP-binding protein -
  GU336_RS11090 (GU336_11080) - 2257288..2257890 (+) 603 Protein_2164 IS5-like element IS1194 family transposase -
  GU336_RS11095 (GU336_11085) - 2257964..2258644 (+) 681 WP_031367160.1 IS6-like element ISS1N family transposase -
  GU336_RS13140 - 2259109..2259189 (+) 81 WP_220437321.1 putative holin-like toxin -
  GU336_RS11105 (GU336_11095) - 2259462..2260067 (-) 606 WP_167839078.1 helical hairpin domain-containing protein -
  GU336_RS11110 (GU336_11100) - 2260120..2261070 (+) 951 WP_167838214.1 IS30 family transposase -
  GU336_RS11115 (GU336_11105) - 2261030..2262184 (-) 1155 WP_167839079.1 relaxase/mobilization nuclease domain-containing protein -
  GU336_RS11120 (GU336_11110) mobC 2262200..2262547 (-) 348 WP_167839080.1 plasmid mobilization relaxosome protein MobC -
  GU336_RS11125 (GU336_11115) - 2262740..2262937 (-) 198 WP_167839081.1 hypothetical protein -
  GU336_RS11130 (GU336_11120) - 2263576..2264454 (-) 879 WP_167839190.1 IS3 family transposase -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49326.82 Da        Isoelectric Point: 5.4218

>NTDB_id=414665 GU336_RS11070 WP_096039573.1 2251536..2252897(-) (radA) [Lactococcus raffinolactis strain Lr_19_5]
MAKAKSKFVCQSCGYQSPKYLGRCPNCGAWNSFVEEIEAKEVKNARVTLTGEKTRPVKLGEVESLDTPRVLTDMGEFNRV
LGGGVVPGSLILIGGDPGIGKSTILLQVSVQLANLGRVLYVSGEESAQQIKMRAERLGDLDSDFYLYAENNMQNIRAEIE
KLQPDFLVIDSIQTVMSPEITGVQGSVSQVREVTAELLQIAKTNNIATFIVGHVTKEGSLAGPRMLEHMVDTVLYFEGER
QHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVTNPSEIFLEERLEGATGSAIVVSMEGTRPILVEIQALVTPTIFGNAR
RTTSGLDFNRVSLIMAVLEKRANLLLQNQDAYLKSAGGVKLDEPAIDLAIAVAIASSYKEKPTAPDVAFIGEIGLTGEIR
RVNRIESRINEAAKLGFKKLYAPKNSLAGLEIPPSIEVIGVTTLAEVLQKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=414665 GU336_RS11070 WP_096039573.1 2251536..2252897(-) (radA) [Lactococcus raffinolactis strain Lr_19_5]
ATGGCGAAAGCAAAATCAAAATTCGTCTGCCAATCCTGTGGGTATCAGTCGCCCAAATATCTGGGGCGCTGTCCAAATTG
TGGCGCTTGGAACTCTTTTGTCGAAGAAATTGAAGCCAAAGAGGTCAAAAATGCGCGCGTGACCCTGACTGGGGAGAAAA
CACGACCTGTTAAACTAGGAGAAGTCGAAAGTCTAGATACACCCCGTGTTTTGACAGATATGGGCGAGTTTAACCGCGTT
CTTGGCGGTGGCGTTGTACCGGGGAGCTTGATTCTTATCGGTGGTGATCCAGGGATTGGGAAGTCAACCATTCTCTTACA
AGTTTCTGTGCAGCTGGCAAATCTCGGGCGTGTCCTTTATGTGTCAGGCGAGGAATCAGCCCAACAAATCAAGATGCGAG
CTGAACGTTTGGGTGATTTGGATTCTGATTTCTACCTCTACGCAGAAAATAATATGCAAAATATCCGAGCTGAAATTGAA
AAATTGCAGCCAGATTTTCTGGTCATTGACTCCATCCAAACCGTCATGAGCCCCGAAATTACAGGCGTACAAGGCTCGGT
CAGTCAAGTTCGAGAAGTGACCGCAGAACTACTCCAAATCGCAAAAACCAATAATATTGCTACCTTTATCGTCGGTCACG
TCACCAAGGAAGGCAGTCTTGCCGGCCCGAGAATGCTAGAGCATATGGTAGATACGGTGCTTTATTTTGAAGGGGAGCGC
CAGCATACTTTTCGGATTCTTCGTGCGGTGAAAAACCGGTTCGGCTCAACCAATGAAATCGGAATTTTTGAGATGCAATC
TCAAGGACTGGTCGAAGTGACCAATCCTAGCGAGATTTTCTTAGAAGAACGTTTAGAAGGCGCGACTGGCTCTGCTATTG
TTGTTTCAATGGAAGGGACCAGACCGATTTTGGTAGAAATTCAAGCGCTTGTCACACCAACGATTTTTGGTAATGCCAGA
CGAACAACTTCAGGTCTTGACTTTAATCGGGTCAGCTTGATCATGGCAGTGCTTGAAAAACGTGCCAATCTCCTGCTCCA
AAATCAAGATGCCTATCTCAAATCAGCTGGTGGTGTCAAATTAGATGAACCAGCCATTGATTTAGCCATTGCGGTTGCCA
TTGCTTCAAGTTATAAAGAAAAACCAACAGCACCAGATGTTGCCTTTATCGGTGAAATTGGCTTGACGGGCGAAATTCGC
CGGGTCAATCGCATCGAGAGTCGGATCAATGAGGCAGCTAAACTAGGCTTTAAAAAACTTTATGCCCCTAAAAATTCCTT
GGCTGGTTTAGAAATCCCACCATCTATAGAAGTCATTGGTGTCACGACTTTAGCCGAAGTCTTACAGAAGGTCTTTGCTT
AA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(82-218)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A290PX25

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
  radA Streptococcus pneumoniae Rx1

81.678

100

0.817
  radA Streptococcus pneumoniae D39

81.678

100

0.817
  radA Streptococcus pneumoniae R6

81.678

100

0.817
  radA Streptococcus pneumoniae TIGR4

81.678

100

0.817
  radA Streptococcus mitis SK321

81.678

100

0.817
  radA Streptococcus mitis NCTC 12261

81.457

100

0.815
  radA Bacillus subtilis subsp. subtilis str. 168

64.68

100

0.647

Multiple sequence alignment