Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   F9Z45_RS19875 Genome accession   NZ_CP044975
Coordinates   4240069..4241445 (+) Length   458 a.a.
NCBI ID   WP_159608408.1    Uniprot ID   A0A6P1IKL7
Organism   Hydrogenophaga sp. PBL-H3 substr. PBL-H3(B2)     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 4235069..4246445
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  F9Z45_RS19850 (F9Z45_19840) - 4235892..4236686 (-) 795 WP_159608403.1 fumarylacetoacetate hydrolase family protein -
  F9Z45_RS19855 (F9Z45_19845) - 4236697..4237344 (-) 648 WP_159608404.1 fumarylacetoacetate hydrolase family protein -
  F9Z45_RS19860 (F9Z45_19850) hpaR 4237341..4237829 (-) 489 WP_159608405.1 homoprotocatechuate degradation operon regulator HpaR -
  F9Z45_RS19865 (F9Z45_19855) - 4237908..4238960 (+) 1053 WP_159608406.1 nitronate monooxygenase -
  F9Z45_RS19870 (F9Z45_19860) - 4238944..4240041 (-) 1098 WP_159608407.1 hypothetical protein -
  F9Z45_RS19875 (F9Z45_19865) radA 4240069..4241445 (+) 1377 WP_159608408.1 DNA repair protein RadA Machinery gene
  F9Z45_RS19880 (F9Z45_19870) - 4241507..4241941 (+) 435 WP_159608409.1 glycerate kinase -
  F9Z45_RS19885 (F9Z45_19875) - 4242007..4242957 (+) 951 WP_159608410.1 branched-chain amino acid transaminase -
  F9Z45_RS19890 (F9Z45_19880) - 4242963..4243169 (+) 207 WP_159608411.1 zinc-finger domain-containing protein -
  F9Z45_RS19895 (F9Z45_19885) rfbB 4243272..4244342 (+) 1071 WP_159608412.1 dTDP-glucose 4,6-dehydratase -
  F9Z45_RS19900 (F9Z45_19890) - 4244339..4245307 (+) 969 WP_159608413.1 hypothetical protein -
  F9Z45_RS19905 (F9Z45_19895) rfbD 4245321..4246220 (+) 900 WP_159608414.1 dTDP-4-dehydrorhamnose reductase -

Sequence

Protein


Download         Length: 458 a.a.        Molecular weight: 48349.54 Da        Isoelectric Point: 7.2386

>NTDB_id=391082 F9Z45_RS19875 WP_159608408.1 4240069..4241445(+) (radA) [Hydrogenophaga sp. PBL-H3 substr. PBL-H3(B2)]
MAKDKTQYTCNECGGSSPKWLGKCPHCNAWNTLVESVAESTAPAKNRFASLAKTAEVTTLADIDATDVQRTPTGHDELDR
VLGGGIVEGGVVLIGGDPGIGKSTLLLQALDSLQRANVKTLYVTGEESGAQVALRSRRLGLDGSQVSVLAEIQLEKILAT
LDHVRPGIAVIDSIQTVYSEQLTSAPGSVAQVRECAAHLTRAAKASGTAIVLVGHVTKEGALAGPRVLEHMVDTVLYFEG
DTHSSFRLIRAIKNRFGAVNEIGVFAMTEKGLKGVSNPSAIFLSQHSEPVPGSCVMVTLEGTRPMLVEIQALVDSGGPSP
RRLSVGLDRDRLAMLLAVLHRHAGVACMDQDVFVNAVGGVRISEPAADLAVMLAITSSLRGRPLPKGFIAFGEVGLAGEV
RPAPRGQERLKEAAKLGFSVAVVPKANLPKKNDKSFEGLTVHGVDRIEEAMELARSLA

Nucleotide


Download         Length: 1377 bp        

>NTDB_id=391082 F9Z45_RS19875 WP_159608408.1 4240069..4241445(+) (radA) [Hydrogenophaga sp. PBL-H3 substr. PBL-H3(B2)]
ATGGCCAAAGACAAAACCCAATACACCTGCAACGAGTGCGGCGGCTCCAGCCCCAAGTGGCTGGGCAAATGCCCGCACTG
CAACGCCTGGAACACGCTGGTGGAATCGGTGGCCGAGTCCACCGCGCCGGCGAAGAACCGCTTTGCCTCGCTGGCCAAGA
CCGCCGAGGTCACCACCCTGGCCGACATCGACGCCACCGACGTGCAGCGCACGCCCACCGGCCACGACGAGCTCGACCGC
GTGCTGGGCGGCGGCATTGTGGAAGGCGGTGTGGTGCTGATCGGCGGCGATCCGGGCATCGGCAAATCCACGCTGCTGCT
GCAGGCGCTGGACTCGCTGCAGCGCGCGAACGTGAAGACCCTCTACGTCACTGGCGAAGAGAGTGGCGCCCAGGTGGCCT
TGCGCTCGCGCCGGCTCGGGCTCGATGGCTCGCAAGTCAGCGTGCTGGCCGAGATCCAACTGGAGAAGATCCTGGCCACG
CTGGACCATGTGCGGCCGGGCATCGCGGTGATCGACTCGATCCAGACGGTGTACTCCGAGCAGCTCACCTCGGCGCCAGG
CTCGGTGGCGCAGGTGCGCGAATGCGCGGCCCACCTCACGCGCGCGGCGAAAGCGAGTGGCACGGCCATCGTGCTGGTCG
GCCACGTGACCAAGGAAGGCGCGCTGGCCGGCCCGCGCGTGCTGGAACACATGGTGGACACGGTGTTGTATTTCGAGGGC
GACACGCACAGCAGCTTCCGCCTGATCCGCGCGATCAAGAACCGCTTCGGCGCGGTCAACGAGATCGGCGTGTTCGCCAT
GACGGAGAAGGGCTTGAAGGGCGTGAGCAACCCAAGCGCGATCTTCTTGAGTCAGCACAGCGAGCCCGTGCCGGGCAGCT
GCGTGATGGTGACGCTGGAAGGCACGCGGCCCATGCTGGTGGAAATCCAGGCGCTCGTGGACAGCGGCGGGCCTTCTCCC
CGGCGCCTCTCCGTGGGCCTGGACCGCGACCGGCTGGCCATGCTGCTGGCGGTGCTGCACCGCCACGCCGGCGTGGCCTG
CATGGACCAGGACGTGTTCGTCAACGCCGTGGGCGGCGTGCGAATCAGCGAGCCGGCGGCCGACCTGGCGGTGATGCTGG
CCATCACAAGCAGCCTGCGCGGCCGTCCACTGCCCAAGGGTTTCATTGCGTTTGGCGAGGTGGGCCTGGCGGGCGAGGTG
CGGCCCGCGCCGCGAGGCCAGGAGCGCCTGAAGGAAGCGGCCAAGCTGGGCTTCAGCGTGGCGGTGGTGCCCAAGGCCAA
CCTGCCCAAGAAAAACGACAAGTCCTTTGAAGGCCTCACGGTGCACGGCGTGGACCGCATTGAAGAAGCCATGGAGCTGG
CGCGCAGCCTGGCCTGA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(64-220)

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

(358-454)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A6P1IKL7

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

49.011

99.345

0.487
  radA Streptococcus pneumoniae Rx1

46.97

100

0.474
  radA Streptococcus pneumoniae D39

46.97

100

0.474
  radA Streptococcus pneumoniae TIGR4

46.97

100

0.474
  radA Streptococcus pneumoniae R6

46.97

100

0.474
  radA Streptococcus mitis NCTC 12261

46.753

100

0.472
  radA Streptococcus mitis SK321

48.499

94.541

0.459

Multiple sequence alignment