Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   LA387_RS07095 Genome accession   NZ_CP084377
Coordinates   1399080..1400441 (-) Length   453 a.a.
NCBI ID   WP_080567145.1    Uniprot ID   -
Organism   Lactococcus garvieae strain Lg-Granada     
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)
Genomic island 1401037..1424430 1399080..1400441 flank 596


Gene organization within MGE regions


Location: 1399080..1424430
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LA387_RS07095 radA 1399080..1400441 (-) 1362 WP_080567145.1 DNA repair protein RadA Machinery gene
  LA387_RS07105 rplQ 1401037..1401417 (-) 381 WP_003133776.1 50S ribosomal protein L17 -
  LA387_RS07110 - 1401433..1402371 (-) 939 WP_003133775.1 DNA-directed RNA polymerase subunit alpha -
  LA387_RS07115 rpsK 1402423..1402806 (-) 384 WP_003133774.1 30S ribosomal protein S11 -
  LA387_RS07120 rpsM 1402824..1403189 (-) 366 WP_003133773.1 30S ribosomal protein S13 -
  LA387_RS07125 rpmJ 1403207..1403323 (-) 117 WP_014024193.1 50S ribosomal protein L36 -
  LA387_RS07130 infA 1403377..1403595 (-) 219 WP_003133772.1 translation initiation factor IF-1 -
  LA387_RS07135 - 1403798..1404241 (+) 444 WP_003133771.1 zinc-dependent MarR family transcriptional regulator -
  LA387_RS07140 - 1404263..1404985 (+) 723 WP_225666498.1 metal ABC transporter ATP-binding protein -
  LA387_RS07145 - 1404978..1405787 (+) 810 WP_003133768.1 metal ABC transporter permease -
  LA387_RS07150 - 1405834..1406481 (-) 648 WP_003133767.1 adenylate kinase -
  LA387_RS07155 secY 1406634..1407950 (-) 1317 WP_003133765.1 preprotein translocase subunit SecY -
  LA387_RS07160 rplO 1408021..1408473 (-) 453 WP_003133763.1 50S ribosomal protein L15 -
  LA387_RS07165 - 1408671..1409720 (-) 1050 WP_003133762.1 BMP family lipoprotein -
  LA387_RS07170 rpmD 1409858..1410040 (-) 183 WP_003134512.1 50S ribosomal protein L30 -
  LA387_RS07175 rpsE 1410051..1410545 (-) 495 WP_003133760.1 30S ribosomal protein S5 -
  LA387_RS07180 rplR 1410566..1410913 (-) 348 WP_003133759.1 50S ribosomal protein L18 -
  LA387_RS07185 rplF 1411056..1411592 (-) 537 WP_003133757.1 50S ribosomal protein L6 -
  LA387_RS07190 rpsH 1411680..1412078 (-) 399 WP_003133755.1 30S ribosomal protein S8 -
  LA387_RS07195 rfbD 1412412..1413281 (-) 870 WP_003133754.1 dTDP-4-dehydrorhamnose reductase -
  LA387_RS07200 - 1413278..1414230 (-) 953 Protein_1428 L-lactate dehydrogenase -
  LA387_RS07205 - 1414331..1414732 (-) 402 WP_017370489.1 ArsC/Spx/MgsR family protein -
  LA387_RS07210 - 1415113..1416714 (-) 1602 WP_017370490.1 Na/Pi cotransporter family protein -
  LA387_RS07215 - 1416942..1417127 (-) 186 WP_003129946.1 type Z 30S ribosomal protein S14 -
  LA387_RS07220 rplE 1417147..1417689 (-) 543 WP_003133751.1 50S ribosomal protein L5 -
  LA387_RS07225 rplX 1417709..1418014 (-) 306 WP_003133750.1 50S ribosomal protein L24 -
  LA387_RS07230 rplN 1418172..1418540 (-) 369 WP_003133749.1 50S ribosomal protein L14 -
  LA387_RS07235 rpsQ 1418562..1418822 (-) 261 WP_003133748.1 30S ribosomal protein S17 -
  LA387_RS07240 rpmC 1418841..1419050 (-) 210 WP_003133747.1 50S ribosomal protein L29 -
  LA387_RS07245 rplP 1419047..1419463 (-) 417 WP_003133745.1 50S ribosomal protein L16 -
  LA387_RS07250 rpsC 1419467..1420120 (-) 654 WP_003133744.1 30S ribosomal protein S3 -
  LA387_RS07255 rplV 1420133..1420480 (-) 348 WP_003133743.1 50S ribosomal protein L22 -
  LA387_RS07260 rpsS 1420496..1420774 (-) 279 WP_003133742.1 30S ribosomal protein S19 -
  LA387_RS07265 rplB 1420986..1421819 (-) 834 WP_003133741.1 50S ribosomal protein L2 -
  LA387_RS07270 - 1421835..1422131 (-) 297 WP_003133740.1 50S ribosomal protein L23 -
  LA387_RS07275 rplD 1422131..1422757 (-) 627 WP_003133739.1 50S ribosomal protein L4 -
  LA387_RS07280 rplC 1422780..1423403 (-) 624 WP_003133737.1 50S ribosomal protein L3 -
  LA387_RS07285 rpsJ 1423418..1423726 (-) 309 WP_003129973.1 30S ribosomal protein S10 -
  LA387_RS07290 mscL 1424050..1424430 (+) 381 WP_003133736.1 large-conductance mechanosensitive channel protein MscL -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49768.92 Da        Isoelectric Point: 4.8676

>NTDB_id=610859 LA387_RS07095 WP_080567145.1 1399080..1400441(-) (radA) [Lactococcus garvieae strain Lg-Granada]
MAKKKSTFLCQECGYKSVKKLGRCPNCGAWGSFVEEVEVQEVKNQRVSLTGEHSKPMKLDQVELFDTPRVETDLDEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLASRGRVLYVSGEESAQQIKLRAERLGDIDTDFYLYAETNMQSIRNEVE
RLQPDFLIVDSIQTIMTPEIQSTQGSVSQVREVTGELMQLAKTNDIATFIVGHVTKEGQLAGPRMLEHMVDTVLYFEGER
QNTFRILRAVKNRFGSTNEIGIFEMQGNGLVEVTNPSEVFLEERLEGSTGSAIVCALEGTRPILVEIQALTTPTMFGNAK
RTTSGLDFNRVSLIMAVLEKRAGFLLQQQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKEEPTDARECFIGEIGLTGEIR
RVTRMEQRLNEASKLGFQKVYAPKNSLAGVDIPENLEVVGVTTLSECLKKVFG

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=610859 LA387_RS07095 WP_080567145.1 1399080..1400441(-) (radA) [Lactococcus garvieae strain Lg-Granada]
ATAGCTAAAAAAAAATCAACATTTCTTTGCCAGGAATGTGGCTACAAATCAGTAAAAAAACTCGGACGTTGTCCCAATTG
TGGTGCTTGGGGTTCCTTTGTTGAAGAAGTAGAAGTCCAAGAGGTAAAAAATCAGAGGGTGAGTCTGACAGGCGAGCACT
CTAAACCCATGAAGTTAGATCAGGTTGAACTTTTCGATACACCGCGTGTGGAAACTGATCTGGATGAGTTTAACCGCGTC
CTTGGAGGCGGTGTCGTTCCAGGAAGTCTAGTCCTTATTGGGGGGGATCCAGGGATTGGTAAATCTACTCTACTGCTTCA
AGTATCTACGCAACTTGCTTCAAGAGGGCGTGTACTTTATGTCAGTGGGGAGGAGTCGGCTCAACAAATTAAGCTGCGTG
CCGAGCGTTTGGGCGACATCGATACAGATTTTTACCTTTACGCCGAAACCAATATGCAAAGCATCCGAAATGAAGTTGAA
CGTCTACAGCCAGACTTTCTTATTGTAGATTCGATTCAAACTATCATGACGCCTGAAATCCAGAGTACTCAGGGTTCGGT
TAGTCAGGTGCGCGAGGTGACAGGAGAATTAATGCAGTTGGCCAAAACCAACGATATTGCGACCTTTATTGTCGGACATG
TCACTAAGGAAGGGCAACTTGCGGGGCCACGTATGTTGGAACATATGGTTGATACGGTCTTGTATTTTGAGGGAGAACGT
CAAAATACATTCCGAATTTTACGCGCGGTCAAAAACCGTTTTGGTTCAACAAATGAAATTGGGATTTTCGAGATGCAGGG
CAATGGTTTAGTGGAAGTGACCAACCCGAGTGAAGTTTTTCTTGAGGAGCGTTTGGAAGGCTCTACGGGCTCTGCTATCG
TCTGTGCGTTAGAAGGTACGCGTCCGATATTGGTTGAGATTCAAGCTTTAACAACGCCAACCATGTTTGGAAATGCCAAA
CGTACAACCTCTGGTTTGGACTTTAACCGTGTGAGTTTAATCATGGCAGTACTCGAAAAGCGTGCCGGTTTTCTTTTGCA
ACAACAGGATGCCTACTTAAAATCCGCAGGTGGTGTCAAGTTGGATGAACCAGCCATTGACTTAGCAGTCGCTGTAGCTA
TTGCTTCTAGCTACAAGGAAGAGCCGACAGATGCACGCGAATGCTTTATTGGCGAAATTGGCTTGACGGGTGAAATTCGT
CGTGTTACGCGGATGGAGCAACGTCTCAATGAAGCAAGCAAACTAGGTTTCCAAAAAGTTTACGCGCCTAAGAATAGCTT
GGCAGGCGTAGATATTCCAGAAAATTTGGAAGTGGTCGGTGTGACGACTTTATCAGAATGTTTGAAAAAAGTATTTGGCT
AA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(77-218)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(359-425)


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
  radA Streptococcus pneumoniae Rx1

80.353

100

0.804
  radA Streptococcus pneumoniae D39

80.353

100

0.804
  radA Streptococcus pneumoniae R6

80.353

100

0.804
  radA Streptococcus pneumoniae TIGR4

80.353

100

0.804
  radA Streptococcus mitis NCTC 12261

80.353

100

0.804
  radA Streptococcus mitis SK321

80.353

100

0.804
  radA Bacillus subtilis subsp. subtilis str. 168

61.438

100

0.623