Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   M6E97_RS30565 Genome accession   NZ_CP097857
Coordinates   6568098..6569459 (-) Length   453 a.a.
NCBI ID   WP_003094867.1    Uniprot ID   A0A0H2ZHH7
Organism   Pseudomonas sp. B111     
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)
Prophage 6528158..6567585 6568098..6569459 flank 513


Gene organization within MGE regions


Location: 6528158..6569459
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M6E97_RS30275 (M6E97_30235) - 6528158..6528664 (-) 507 WP_003094862.1 DUF3015 domain-containing protein -
  M6E97_RS30280 (M6E97_30240) - 6528956..6531109 (-) 2154 WP_267262444.1 phage tail protein -
  M6E97_RS30285 (M6E97_30245) - 6531099..6531338 (-) 240 WP_267262446.1 hypothetical protein -
  M6E97_RS30290 (M6E97_30250) - 6531335..6531577 (-) 243 WP_096309388.1 hypothetical protein -
  M6E97_RS30295 (M6E97_30255) - 6531587..6532408 (-) 822 WP_267262448.1 phage BR0599 family protein -
  M6E97_RS30300 (M6E97_30260) - 6532398..6534113 (-) 1716 WP_267262449.1 hypothetical protein -
  M6E97_RS30305 (M6E97_30265) - 6534114..6534995 (-) 882 WP_267262450.1 hypothetical protein -
  M6E97_RS30310 (M6E97_30270) - 6534995..6535852 (-) 858 WP_267262451.1 hypothetical protein -
  M6E97_RS30315 (M6E97_30275) - 6535852..6539292 (-) 3441 WP_267262452.1 phage tail length tape measure family protein -
  M6E97_RS30320 (M6E97_30280) - 6539457..6539624 (-) 168 WP_267262453.1 hypothetical protein -
  M6E97_RS30325 (M6E97_30285) - 6539782..6540297 (-) 516 WP_267262454.1 DUF6631 family protein -
  M6E97_RS30330 (M6E97_30290) - 6540300..6541073 (-) 774 WP_196474630.1 hypothetical protein -
  M6E97_RS30335 (M6E97_30295) - 6541085..6541294 (-) 210 WP_252636149.1 DUF7210 family protein -
  M6E97_RS30340 (M6E97_30300) - 6541291..6541731 (-) 441 WP_267262455.1 hypothetical protein -
  M6E97_RS30345 (M6E97_30305) - 6541731..6542246 (-) 516 WP_267262456.1 gp436 family protein -
  M6E97_RS30350 (M6E97_30310) - 6542250..6542852 (-) 603 WP_267262457.1 HI1506-related protein -
  M6E97_RS30355 (M6E97_30315) - 6542865..6543758 (-) 894 WP_267262458.1 Mu-like prophage major head subunit gpT family protein -
  M6E97_RS30360 (M6E97_30320) - 6543773..6544180 (-) 408 WP_267262459.1 hypothetical protein -
  M6E97_RS30365 (M6E97_30325) - 6544184..6545290 (-) 1107 WP_267262460.1 phage protease -
  M6E97_RS30370 (M6E97_30330) - 6545408..6545725 (-) 318 WP_267262461.1 hypothetical protein -
  M6E97_RS30375 (M6E97_30335) - 6545722..6546450 (-) 729 WP_267262462.1 Bro-N domain-containing protein -
  M6E97_RS30380 (M6E97_30340) - 6546878..6547453 (-) 576 WP_267262463.1 phage virion morphogenesis protein -
  M6E97_RS30385 (M6E97_30345) - 6547456..6548685 (-) 1230 WP_267262464.1 PBECR2 nuclease fold domain-containing protein -
  M6E97_RS30390 (M6E97_30350) - 6548675..6550243 (-) 1569 WP_267262465.1 DUF935 domain-containing protein -
  M6E97_RS30395 (M6E97_30355) - 6550237..6551895 (-) 1659 WP_267262466.1 hypothetical protein -
  M6E97_RS30400 (M6E97_30360) - 6551888..6552055 (-) 168 WP_267262467.1 hypothetical protein -
  M6E97_RS30405 (M6E97_30365) - 6552055..6552603 (-) 549 WP_267262468.1 phage protein Gp27 family protein -
  M6E97_RS30410 (M6E97_30370) - 6552606..6552905 (-) 300 WP_252636139.1 ArsR family transcriptional regulator -
  M6E97_RS30415 (M6E97_30375) - 6552913..6553248 (-) 336 WP_267262469.1 DUF2730 family protein -
  M6E97_RS30420 (M6E97_30380) - 6553248..6553871 (-) 624 WP_267262470.1 lysis protein -
  M6E97_RS30425 (M6E97_30385) - 6554085..6554702 (-) 618 Protein_6022 transglycosylase SLT domain-containing protein -
  M6E97_RS30430 (M6E97_30390) - 6554792..6555094 (-) 303 WP_267262472.1 putative holin -
  M6E97_RS30435 (M6E97_30395) - 6555490..6555765 (-) 276 WP_267262473.1 hypothetical protein -
  M6E97_RS30440 (M6E97_30400) - 6555772..6556074 (-) 303 WP_267262474.1 hypothetical protein -
  M6E97_RS30445 (M6E97_30405) - 6556090..6556659 (-) 570 WP_267262475.1 hypothetical protein -
  M6E97_RS30450 (M6E97_30410) - 6556663..6557139 (-) 477 WP_267262476.1 helix-turn-helix domain-containing protein -
  M6E97_RS30455 (M6E97_30415) - 6557223..6557435 (+) 213 WP_267262477.1 DNA-binding protein -
  M6E97_RS30460 (M6E97_30420) - 6557480..6557968 (+) 489 WP_267262478.1 hypothetical protein -
  M6E97_RS30465 (M6E97_30425) - 6557925..6558179 (-) 255 WP_125878665.1 hypothetical protein -
  M6E97_RS30470 (M6E97_30430) - 6558309..6558788 (+) 480 WP_267262479.1 hypothetical protein -
  M6E97_RS30475 (M6E97_30435) - 6558785..6559012 (+) 228 WP_267262480.1 hypothetical protein -
  M6E97_RS30480 (M6E97_30440) - 6559009..6559317 (+) 309 WP_024308355.1 helix-turn-helix domain-containing protein -
  M6E97_RS30485 (M6E97_30445) - 6559334..6559615 (+) 282 WP_267262481.1 hypothetical protein -
  M6E97_RS30490 (M6E97_30450) - 6559615..6559908 (+) 294 WP_267262482.1 hypothetical protein -
  M6E97_RS30495 (M6E97_30455) - 6559913..6560884 (+) 972 WP_267262483.1 hypothetical protein -
  M6E97_RS30500 (M6E97_30460) - 6560888..6562663 (+) 1776 WP_267262484.1 integrase -
  M6E97_RS30505 (M6E97_30465) - 6562663..6563862 (+) 1200 WP_024308351.1 AAA family ATPase -
  M6E97_RS30510 (M6E97_30470) - 6563866..6564291 (+) 426 WP_267262485.1 host nuclease inhibitor protein -
  M6E97_RS30515 (M6E97_30475) - 6564294..6564644 (+) 351 WP_267262486.1 hypothetical protein -
  M6E97_RS30520 (M6E97_30480) - 6564641..6564895 (+) 255 WP_267262487.1 hypothetical protein -
  M6E97_RS30525 (M6E97_30485) - 6564895..6565077 (+) 183 WP_024308347.1 hypothetical protein -
  M6E97_RS30530 (M6E97_30490) - 6565070..6565690 (+) 621 WP_267262488.1 DUF3164 family protein -
  M6E97_RS30535 (M6E97_30495) - 6565692..6565883 (+) 192 WP_024308345.1 hypothetical protein -
  M6E97_RS30540 (M6E97_30500) - 6565885..6566106 (+) 222 WP_267262489.1 hypothetical protein -
  M6E97_RS30545 (M6E97_30505) - 6566106..6566672 (+) 567 WP_267262490.1 gp16 family protein -
  M6E97_RS30550 (M6E97_30510) - 6566672..6567220 (+) 549 WP_267262491.1 hypothetical protein -
  M6E97_RS30555 (M6E97_30515) - 6567217..6567585 (+) 369 WP_267262492.1 Mor transcription activator family protein -
  M6E97_RS30560 (M6E97_30520) mapZ 6567714..6568091 (+) 378 WP_003094864.1 cyclic di-GMP-binding protein MapZ -
  M6E97_RS30565 (M6E97_30525) radA 6568098..6569459 (-) 1362 WP_003094867.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 48410.81 Da        Isoelectric Point: 6.8357

>NTDB_id=693093 M6E97_RS30565 WP_003094867.1 6568098..6569459(-) (radA) [Pseudomonas sp. B111]
MAKAKRMYGCTECGATFPKWAGQCADCGAWNTLVETVVEAAPSGSGRGGWAGQQANLKTLAEVSVEEMPRFTTGSTELDR
VLGGGLVDGSVVLIGGDPGIGKSTILLQTLCNLASRVPALYVTGEESQQQVAMRARRLSLPEDKLKVMTETSIETIIATA
RQEQPRVMVIDSIQTIFTEQLQSAPGGVAQVRESAAMLVRYAKQSGTAIFLVGHVTKEGALAGPRVLEHMVDTVLYFEGE
SDGRLRLLRAVKNRFGAVNELGVFGMTDKGLKEVSNPSAIFLTRAQEAVPGSVVMATWEGSRPMLVEVQALVDTSHLANP
RRVTLGLDQNRLAMLLAVLHRHGGIPTYDQDVFLNVVGGVKVLETASDLALMAAVMSSLRNRPLPHDLLVFGEVGLSGEV
RPVPSGQERLKEAGKHGFKRAIVPLGNAPKEAPAGLQVIAVTRLEQALDALFE

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=693093 M6E97_RS30565 WP_003094867.1 6568098..6569459(-) (radA) [Pseudomonas sp. B111]
ATGGCCAAGGCCAAGCGCATGTACGGCTGCACCGAGTGTGGCGCGACCTTCCCGAAATGGGCCGGCCAGTGCGCGGACTG
CGGGGCCTGGAACACCCTGGTGGAGACCGTCGTCGAGGCCGCGCCGAGCGGCTCCGGGCGCGGCGGCTGGGCCGGCCAGC
AGGCCAACCTGAAGACCCTGGCGGAGGTCAGCGTCGAGGAGATGCCGCGCTTCACGACCGGTTCCACCGAACTGGATCGG
GTTCTCGGCGGCGGCCTGGTGGACGGGTCGGTGGTGCTGATCGGCGGCGATCCCGGCATCGGCAAGTCGACCATTCTCCT
GCAGACCCTTTGCAACCTGGCCAGCCGCGTCCCGGCGCTGTACGTCACCGGCGAGGAATCCCAGCAGCAGGTGGCGATGC
GCGCGCGGCGCCTGTCGTTGCCGGAAGACAAGCTCAAGGTGATGACCGAGACCAGCATCGAGACCATCATCGCCACCGCG
CGCCAGGAGCAGCCGCGGGTGATGGTGATCGACTCGATCCAGACCATCTTCACCGAGCAGTTGCAATCGGCGCCGGGCGG
CGTCGCCCAGGTCCGCGAGAGCGCCGCGATGCTGGTGCGCTATGCCAAGCAGAGCGGCACGGCGATCTTCCTGGTCGGCC
ACGTGACCAAGGAAGGCGCCCTGGCCGGCCCGCGGGTGCTCGAACACATGGTCGACACCGTACTGTATTTCGAAGGCGAG
TCAGACGGCCGCCTGCGTCTGCTGCGGGCAGTGAAGAACCGCTTCGGCGCGGTCAACGAACTGGGAGTGTTCGGCATGAC
CGACAAAGGCCTGAAGGAAGTGAGCAACCCTTCGGCGATCTTCCTCACGCGGGCCCAGGAAGCGGTGCCCGGCAGCGTGG
TGATGGCCACCTGGGAAGGCTCGCGGCCGATGCTGGTGGAGGTCCAGGCGCTGGTCGACACCAGTCACCTGGCGAATCCG
CGGCGGGTGACCCTGGGCCTCGACCAGAACCGCCTGGCGATGCTGCTGGCGGTGCTGCACCGGCACGGCGGTATCCCGAC
CTACGACCAGGACGTGTTCCTCAACGTGGTGGGTGGGGTCAAGGTGCTGGAAACCGCCTCCGACCTGGCGTTGATGGCGG
CGGTGATGTCCAGCCTGCGCAACCGCCCGCTGCCGCACGACCTGCTGGTGTTCGGCGAGGTCGGGCTGTCCGGCGAGGTG
CGTCCGGTGCCGAGCGGCCAGGAGCGCCTGAAGGAAGCCGGCAAGCATGGTTTCAAGCGTGCCATCGTACCCCTCGGCAA
CGCGCCGAAGGAGGCGCCGGCGGGATTGCAGGTGATCGCCGTGACGCGCCTCGAGCAGGCCCTGGACGCCCTCTTCGAGT
GA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(74-219)

Subunit ChlI of Mg-chelatase (ChlI)

(361-427)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0H2ZHH7

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 Bacillus subtilis subsp. subtilis str. 168

48.458

100

0.486
  radA Streptococcus pneumoniae Rx1

46.288

100

0.468
  radA Streptococcus pneumoniae D39

46.288

100

0.468
  radA Streptococcus pneumoniae R6

46.288

100

0.468
  radA Streptococcus pneumoniae TIGR4

46.288

100

0.468
  radA Streptococcus mitis SK321

46.389

100

0.468
  radA Streptococcus mitis NCTC 12261

46.171

100

0.466