Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   dnl_RS18995 Genome accession   NZ_CP061799
Coordinates   4475598..4477010 (+) Length   470 a.a.
NCBI ID   WP_246514748.1    Uniprot ID   -
Organism   Desulfonema limicola strain 5ac10     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 4470598..4482010
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  dnl_RS18960 (dnl_41680) - 4471485..4472360 (-) 876 WP_207687805.1 hypothetical protein -
  dnl_RS18965 (dnl_41690) - 4472434..4472751 (-) 318 WP_207687806.1 hypothetical protein -
  dnl_RS18970 (dnl_41700) - 4473006..4473449 (-) 444 WP_207687807.1 hypothetical protein -
  dnl_RS18975 (dnl_41710) - 4473582..4474013 (+) 432 WP_207687808.1 hypothetical protein -
  dnl_RS18985 (dnl_41720) - 4474408..4474635 (-) 228 WP_207687809.1 PLDc N-terminal domain-containing protein -
  dnl_RS18990 (dnl_41730) - 4474638..4475525 (-) 888 WP_207687810.1 lytic murein transglycosylase -
  dnl_RS18995 (dnl_41740) radA 4475598..4477010 (+) 1413 WP_246514748.1 DNA repair protein RadA Machinery gene
  dnl_RS19000 (dnl_41750) - 4477084..4477686 (+) 603 WP_207687811.1 SAM-dependent methyltransferase -
  dnl_RS19005 (dnl_41760) - 4477696..4478430 (+) 735 WP_207687812.1 YebC/PmpR family DNA-binding transcriptional regulator -
  dnl_RS19010 - 4478635..4478871 (+) 237 Protein_3787 nucleotidyltransferase family protein -
  dnl_RS19015 (dnl_41780) nadA 4478913..4479806 (-) 894 Protein_3788 quinolinate synthase NadA -
  dnl_RS30035 (dnl_41790) - 4479821..4480105 (-) 285 WP_207692619.1 outer-membrane lipoprotein carrier protein LolA -
  dnl_RS30040 (dnl_41800) - 4480075..4480506 (-) 432 WP_207687814.1 LolA family protein -
  dnl_RS19030 (dnl_41810) - 4480507..4481034 (-) 528 WP_207687815.1 hypothetical protein -
  dnl_RS19035 (dnl_41820) - 4481049..4481954 (-) 906 WP_207687816.1 hypothetical protein -

Sequence

Protein


Download         Length: 470 a.a.        Molecular weight: 51094.34 Da        Isoelectric Point: 6.8318

>NTDB_id=484730 dnl_RS18995 WP_246514748.1 4475598..4477010(+) (radA) [Desulfonema limicola strain 5ac10]
MDINVNNTNTKKADSVKKKDKNIYICQSCGYNSPKWMGKCPECENWDSFVEEMMQPKNDSGPLRGVAHVQARPVPIDSIT
LEDEIRTSTGINEFDRVLGGGLVSGSLVLIGGDPGIGKSTLMLQALYGLSLQNLKVLYVSGEESIRQIKLRSKRLGTIGP
NILVVSEIDLDSIISMVNSEKPDVLVIDSIQTMFNSDLSSAPGSVTQVRESAMRLMIMAKKTGIPTFIVGHVTKEGAIAG
PRLLEHMVDTVLYFEGDRSHVFRILRAVKNRFGSTNEIGVFEMKEKGLDEVPNPSAVFLSERPSNAPGSVVTTSMEGTRP
ILIEIQALASATSFGNPRRTILGLDQNKVALLVAVMEKKLGLHLMGHDIFMNVAGGVKVLEPAVDMGIVAAIASSFLDRP
LPKGCIVMGEIGLTGEVRAISHIETRVSETWKMGFTRCIVPKSNVKRMTEVEGIEIIGVNTVIQAVETLF

Nucleotide


Download         Length: 1413 bp        

>NTDB_id=484730 dnl_RS18995 WP_246514748.1 4475598..4477010(+) (radA) [Desulfonema limicola strain 5ac10]
ATGGATATAAATGTCAATAATACAAATACAAAGAAAGCTGATAGTGTGAAAAAAAAAGATAAAAATATTTATATATGCCA
GTCATGTGGATACAACAGCCCAAAATGGATGGGGAAATGTCCTGAATGTGAAAACTGGGATTCTTTTGTTGAAGAGATGA
TGCAGCCCAAAAATGATTCAGGTCCTCTTAGGGGTGTTGCTCATGTTCAGGCAAGACCTGTTCCCATTGATTCCATTACC
CTGGAAGATGAAATTCGAACCAGTACCGGTATTAATGAATTTGACAGGGTTCTTGGAGGGGGTCTGGTTTCAGGCTCTCT
TGTGCTTATCGGCGGGGATCCGGGTATTGGCAAATCTACTCTTATGCTTCAGGCCCTGTACGGTCTTTCTCTTCAGAATC
TCAAGGTTCTTTATGTTTCAGGAGAAGAATCCATCAGGCAGATAAAACTCAGGAGCAAAAGGCTTGGAACCATAGGCCCG
AATATTCTGGTTGTATCTGAAATTGATCTTGATTCAATTATCAGTATGGTAAATTCTGAAAAACCTGATGTGCTTGTCAT
AGATTCTATCCAGACCATGTTTAACAGTGATCTTTCTTCTGCACCAGGAAGTGTTACCCAGGTTCGGGAGTCAGCAATGC
GTCTTATGATTATGGCAAAAAAAACAGGGATACCAACCTTTATTGTAGGCCATGTTACCAAAGAGGGGGCTATTGCAGGT
CCAAGGCTGCTTGAACATATGGTTGATACTGTATTATATTTTGAAGGAGACAGGAGCCATGTATTTCGGATTTTAAGAGC
TGTTAAAAACCGGTTTGGCTCTACTAATGAAATAGGTGTGTTTGAAATGAAGGAAAAAGGACTGGATGAGGTTCCCAATC
CTTCTGCTGTTTTTCTTTCAGAACGGCCTTCTAATGCCCCTGGTTCTGTTGTTACTACCAGTATGGAAGGAACACGCCCT
ATTCTTATAGAGATTCAAGCTCTTGCCAGTGCCACTAGTTTTGGAAATCCCAGACGTACAATTCTTGGTTTGGATCAAAA
CAAGGTAGCACTGCTTGTGGCTGTTATGGAAAAAAAACTGGGACTTCATCTTATGGGACATGATATTTTCATGAATGTTG
CAGGAGGAGTTAAGGTACTGGAACCTGCTGTTGATATGGGCATTGTTGCTGCAATAGCCTCCAGTTTCCTTGATCGTCCC
TTGCCCAAGGGCTGTATTGTTATGGGAGAAATAGGGCTTACAGGTGAAGTAAGAGCAATAAGCCATATTGAAACCAGGGT
TTCTGAAACCTGGAAAATGGGTTTTACACGGTGTATTGTGCCAAAAAGCAATGTAAAACGCATGACAGAGGTTGAAGGTA
TTGAAATCATAGGAGTAAATACTGTAATCCAGGCTGTTGAAACCTTGTTTTAA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(358-444)

AAA domain (AAA_25)

(95-236)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(24-51)


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

59.161

96.383

0.57
  radA Streptococcus mitis NCTC 12261

53.846

96.809

0.521
  radA Streptococcus pneumoniae Rx1

53.846

96.809

0.521
  radA Streptococcus pneumoniae D39

53.846

96.809

0.521
  radA Streptococcus pneumoniae R6

53.846

96.809

0.521
  radA Streptococcus pneumoniae TIGR4

53.846

96.809

0.521
  radA Streptococcus mitis SK321

53.846

96.809

0.521