Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   LDN84_RS20075 Genome accession   NZ_AP024238
Coordinates   4354507..4355883 (-) Length   458 a.a.
NCBI ID   WP_223905273.1    Uniprot ID   -
Organism   Rhodoferax lithotrophicus strain MIZ03     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 4349507..4360883
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDN84_RS20045 (MIZ03_4232) - 4349731..4350219 (+) 489 WP_223905261.1 thioesterase family protein -
  LDN84_RS20050 (MIZ03_4233) - 4350247..4351647 (-) 1401 WP_223905263.1 ATP-binding protein -
  LDN84_RS20055 (MIZ03_4234) - 4351661..4352332 (-) 672 WP_223905265.1 response regulator transcription factor -
  LDN84_RS20060 (MIZ03_4235) - 4352365..4353096 (-) 732 WP_223905267.1 cytochrome b/b6 domain-containing protein -
  LDN84_RS20065 (MIZ03_4236) - 4353102..4353626 (-) 525 WP_223905269.1 diheme cytochrome c -
  LDN84_RS20070 (MIZ03_4237) - 4353812..4354441 (+) 630 WP_223905271.1 glycine zipper 2TM domain-containing protein -
  LDN84_RS20075 (MIZ03_4238) radA 4354507..4355883 (-) 1377 WP_223905273.1 DNA repair protein RadA Machinery gene
  LDN84_RS20080 (MIZ03_4239) - 4355951..4356976 (-) 1026 WP_223905275.1 PQQ-like beta-propeller repeat protein -
  LDN84_RS20085 (MIZ03_4240) - 4357036..4357929 (-) 894 WP_223905278.1 hypothetical protein -

Sequence

Protein


Download         Length: 458 a.a.        Molecular weight: 48375.76 Da        Isoelectric Point: 7.2042

>NTDB_id=84229 LDN84_RS20075 WP_223905273.1 4354507..4355883(-) (radA) [Rhodoferax lithotrophicus strain MIZ03]
MAKEKTHYVCSECGGISPKWQGKCPSCNAWNTLIESVPESTAPTKNRFASLSKTAEVAVLGEIDAVDFARTPTGHEELDR
VLGGGMVEGGVVLIGGDPGIGKSTLLLQALDSLQRSGQSTLYVTGEESGAQVALRARRLGLDGSQVKVLAEIGLEKILST
LESMRPDIAVIDSIQTVYSEQLTSAPGSVAQVRECAAHLTRAAKASGVSIVLVGHVTKEGALAGPRVLEHMVDTVLYFEG
DTHSSFRLVRAIKNRFGAVNEIGVFAMTEKGLKGVSNPSAIFLSQHAEPVPGSCVMVTLEGTRPMLVEIQALVDSGGPSP
RRLSVGLDKDRLAMLLAVLHRHAGVACMDQDVFVNAVGGVRISEPAADLAVLLAITSSLRGKPLPKGFFAFGEIGLAGEV
RPAPRGQERLKEAAKLGFSVAVVPKANAPKNLKSKDFEGLTIHPVERVEQAMEVVRGL

Nucleotide


Download         Length: 1377 bp        

>NTDB_id=84229 LDN84_RS20075 WP_223905273.1 4354507..4355883(-) (radA) [Rhodoferax lithotrophicus strain MIZ03]
ATGGCCAAAGAAAAAACCCACTACGTCTGCTCTGAATGCGGCGGCATCAGCCCCAAGTGGCAGGGCAAATGCCCCAGCTG
CAACGCCTGGAACACACTGATTGAATCGGTTCCAGAGAGCACAGCCCCGACCAAAAACCGTTTTGCTTCCCTGTCCAAAA
CCGCTGAAGTGGCGGTGCTCGGCGAGATTGACGCGGTTGATTTCGCGCGCACACCCACCGGTCACGAAGAACTGGATCGC
GTGTTGGGCGGCGGTATGGTCGAAGGCGGTGTGGTCTTGATCGGTGGTGACCCTGGCATTGGCAAATCCACCTTGCTGCT
GCAAGCGCTTGACTCGTTGCAGCGCAGTGGCCAAAGCACCCTGTATGTCACCGGCGAAGAAAGCGGCGCACAAGTGGCGT
TGCGGGCACGCCGCCTGGGGCTGGACGGCTCACAGGTGAAGGTGCTGGCCGAGATTGGGCTGGAGAAAATCCTCTCAACG
CTGGAGTCCATGCGGCCCGACATTGCGGTGATCGACTCGATCCAAACCGTGTATTCCGAGCAACTCACCTCGGCCCCAGG
CTCGGTGGCGCAAGTGCGTGAATGTGCCGCACACCTGACACGTGCGGCCAAAGCCAGTGGTGTGAGTATTGTGCTGGTCG
GCCACGTCACCAAAGAGGGCGCTTTGGCCGGCCCACGTGTGCTGGAGCACATGGTCGACACCGTGCTCTACTTTGAAGGC
GACACCCATTCCAGCTTTCGCTTGGTGCGGGCCATCAAAAACCGCTTTGGTGCAGTCAATGAAATTGGCGTGTTTGCCAT
GACCGAGAAAGGACTCAAGGGCGTCAGCAACCCCAGTGCCATTTTCTTGAGCCAGCACGCCGAGCCGGTGCCGGGCAGTT
GTGTCATGGTTACCCTGGAAGGCACGCGCCCGATGCTGGTGGAAATTCAGGCCCTGGTGGACAGCGGCGGGCCGTCGCCC
CGGCGCTTGAGTGTCGGGCTGGACAAAGACCGCCTGGCCATGCTGCTGGCGGTGTTGCACCGTCATGCGGGCGTGGCGTG
TATGGATCAGGATGTGTTTGTGAATGCTGTGGGTGGCGTGCGCATCTCTGAGCCCGCGGCTGATTTGGCGGTGCTGCTGG
CCATCACCTCCAGCCTGCGCGGCAAACCCTTGCCCAAAGGTTTTTTTGCCTTTGGTGAAATTGGTCTGGCGGGAGAAGTC
CGCCCGGCCCCACGCGGGCAGGAGCGTCTGAAAGAAGCCGCCAAACTGGGCTTCAGCGTGGCCGTGGTGCCCAAAGCCAA
CGCCCCCAAAAACCTGAAATCCAAAGACTTCGAGGGCCTGACGATTCACCCGGTGGAGCGCGTCGAACAGGCCATGGAAG
TGGTACGTGGGTTGTAA

Domains

Predicted by InterproScan.

Lon protease (S16) C-terminal proteolytic domain (Lon_C)

(358-454)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(63-220)


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

49.887

96.725

0.483
  radA Streptococcus mitis NCTC 12261

49.417

93.668

0.463
  radA Streptococcus pneumoniae Rx1

49.417

93.668

0.463
  radA Streptococcus pneumoniae D39

49.417

93.668

0.463
  radA Streptococcus pneumoniae R6

49.417

93.668

0.463
  radA Streptococcus pneumoniae TIGR4

49.417

93.668

0.463
  radA Streptococcus mitis SK321

49.417

93.668

0.463

Multiple sequence alignment