Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   LGT42_RS13340 Genome accession   NZ_CP095733
Coordinates   2783046..2784434 (-) Length   462 a.a.
NCBI ID   WP_226070142.1    Uniprot ID   -
Organism   Methylophaga pinxianii strain TMB1265     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2778046..2789434
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LGT42_RS13310 (LGT42_013310) rsmI 2778361..2779206 (-) 846 WP_226070148.1 16S rRNA (cytidine(1402)-2'-O)-methyltransferase -
  LGT42_RS13315 (LGT42_013315) - 2779299..2781158 (+) 1860 WP_226070147.1 penicillin-binding protein activator -
  LGT42_RS13320 (LGT42_013320) - 2781164..2781520 (+) 357 WP_226070146.1 YraN family protein -
  LGT42_RS13325 (LGT42_013325) - 2781561..2782136 (+) 576 WP_226070145.1 BON domain-containing protein -
  LGT42_RS13330 (LGT42_013330) hemJ 2782177..2782608 (-) 432 WP_349630193.1 protoporphyrinogen oxidase HemJ -
  LGT42_RS13335 (LGT42_013335) - 2782665..2783042 (+) 378 WP_226070143.1 PilZ domain-containing protein -
  LGT42_RS13340 (LGT42_013340) radA 2783046..2784434 (-) 1389 WP_226070142.1 DNA repair protein RadA Machinery gene
  LGT42_RS13345 (LGT42_013345) alr 2784427..2785515 (-) 1089 WP_226070141.1 alanine racemase -
  LGT42_RS13350 (LGT42_013350) dnaB 2785512..2786924 (-) 1413 WP_226070140.1 replicative DNA helicase -
  LGT42_RS13355 (LGT42_013355) rplI 2787131..2787574 (-) 444 Protein_2624 50S ribosomal protein L9 -
  LGT42_RS13360 (LGT42_013360) - 2787623..2788531 (-) 909 WP_226343178.1 DUF2232 domain-containing protein -
  LGT42_RS13365 (LGT42_013365) rpsR 2788569..2788796 (-) 228 WP_014706206.1 30S ribosomal protein S18 -
  LGT42_RS13370 (LGT42_013370) rpsF 2788812..2789156 (-) 345 WP_226070136.1 30S ribosomal protein S6 -

Sequence

Protein


Download         Length: 462 a.a.        Molecular weight: 49649.25 Da        Isoelectric Point: 7.7392

>NTDB_id=677800 LGT42_RS13340 WP_226070142.1 2783046..2784434(-) (radA) [Methylophaga pinxianii strain TMB1265]
MAKAKRVYVCRECGAQTPQWAGRCTDCGAWNSLEESVQTSAKPTATLNKHTGYAGQQQNTVQALKTITSEQAVRWSTGLP
ELDRVLGGGLVTGSVVLIGGDPGIGKSTLLLQAMASMAELSGINPLYISGEESLQQIRLRAERLQLQETPVDLLAETHAE
QMMATAQLRQPQVMVIDSIQTVFTELLQSAPGTVAQVRESAAQLVRFAKTSGITMILVGHVTKQGALAGPRVLEHMVDTV
LYFEGDSSTRFRILRAVKNRFGAVNELGVFAMTELGLKEVSNPSAIFLSRGEQAVPGSIITVIREGSRPMLVEVQALVDE
SPLGNPRRVSVGLEQNRLAMLLAILHRHGCITCHDQDVFINVVGGVKLSETGADLAVISAVISSLRNKAIPQDWVVFGEV
GLTGEIRPVQAGEERIRDAGKHGFKVALVPAANAPRKAISGLKVIAVHHLQQAIDALKDGWM

Nucleotide


Download         Length: 1389 bp        

>NTDB_id=677800 LGT42_RS13340 WP_226070142.1 2783046..2784434(-) (radA) [Methylophaga pinxianii strain TMB1265]
ATGGCTAAAGCCAAACGTGTCTATGTTTGTCGTGAGTGTGGTGCACAAACTCCACAGTGGGCGGGAAGGTGTACCGATTG
TGGTGCCTGGAACAGTCTTGAAGAATCAGTACAAACTAGCGCTAAACCCACCGCAACGCTGAATAAACATACGGGGTATG
CCGGGCAGCAGCAAAATACGGTTCAGGCATTAAAAACCATCACTTCTGAACAGGCTGTTCGCTGGTCAACAGGATTGCCA
GAATTAGATCGTGTACTAGGCGGTGGTTTAGTAACCGGTTCAGTGGTGCTGATTGGCGGTGATCCGGGGATCGGAAAATC
AACCCTGTTGTTACAGGCCATGGCCAGTATGGCCGAGTTAAGCGGTATCAATCCGCTTTATATCAGTGGTGAAGAATCCT
TACAGCAAATCCGTCTGCGCGCGGAACGTTTGCAATTACAGGAAACACCGGTCGATTTGCTGGCAGAAACTCATGCCGAA
CAAATGATGGCTACCGCCCAGCTACGCCAACCACAAGTGATGGTTATAGATTCAATTCAAACCGTTTTTACAGAATTGCT
GCAATCGGCACCCGGAACAGTAGCGCAGGTCCGTGAAAGTGCAGCTCAGTTAGTAAGGTTTGCAAAAACCAGCGGTATCA
CGATGATTCTGGTTGGACATGTGACCAAGCAAGGTGCATTAGCCGGTCCACGTGTCCTGGAACATATGGTCGATACGGTT
TTATATTTTGAAGGAGACAGTTCTACCCGCTTTCGTATTTTAAGGGCTGTTAAAAATCGTTTTGGCGCAGTGAATGAATT
GGGTGTATTTGCCATGACTGAGCTGGGCCTGAAAGAGGTCAGCAATCCTTCGGCAATATTTCTTTCCCGCGGTGAACAAG
CGGTTCCAGGCAGTATCATTACAGTGATTCGCGAGGGCAGTCGGCCCATGCTGGTAGAAGTTCAAGCGCTGGTTGATGAG
AGTCCATTGGGCAATCCACGACGTGTCTCAGTAGGGCTGGAACAGAATCGGTTAGCGATGTTATTGGCCATATTACATCG
TCATGGTTGTATCACTTGTCATGATCAAGATGTTTTTATCAACGTAGTTGGTGGGGTTAAGCTTAGCGAAACAGGTGCTG
ATCTGGCTGTTATATCAGCGGTAATATCCAGTCTACGTAACAAAGCAATTCCACAGGATTGGGTGGTGTTTGGTGAGGTT
GGATTAACTGGTGAAATTCGTCCTGTTCAAGCCGGCGAGGAACGTATTCGTGACGCAGGGAAACATGGCTTTAAAGTGGC
ATTGGTGCCAGCTGCCAATGCTCCACGAAAGGCAATTTCAGGGCTTAAAGTGATTGCTGTTCATCATTTGCAGCAAGCAA
TAGATGCTCTTAAAGATGGCTGGATGTGA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(77-225)

Subunit ChlI of Mg-chelatase (ChlI)

(352-433)


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 Bacillus subtilis subsp. subtilis str. 168

48.06

100

0.483
  radA Streptococcus mitis NCTC 12261

46.187

99.351

0.459
  radA Streptococcus pneumoniae D39

45.77

99.784

0.457
  radA Streptococcus pneumoniae TIGR4

45.77

99.784

0.457
  radA Streptococcus mitis SK321

45.77

99.784

0.457
  radA Streptococcus pneumoniae R6

45.77

99.784

0.457
  radA Streptococcus pneumoniae Rx1

45.77

99.784

0.457