Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DSM105001_RS00425 Genome accession   NZ_CP028361
Coordinates   50846..52219 (+) Length   457 a.a.
NCBI ID   WP_021364956.1    Uniprot ID   -
Organism   Clostridioides difficile strain DSM 105001     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 45846..57219
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DSM105001_RS00405 (DSM105001_00085) - 46226..46690 (+) 465 WP_003425587.1 CtsR family transcriptional regulator -
  DSM105001_RS00410 (DSM105001_00086) - 46697..47191 (+) 495 WP_003421255.1 UvrB/UvrC motif-containing protein -
  DSM105001_RS00415 (DSM105001_00087) - 47207..48232 (+) 1026 WP_003425584.1 protein arginine kinase -
  DSM105001_RS00420 (DSM105001_00088) - 48219..50666 (+) 2448 WP_003425582.1 ATP-dependent Clp protease ATP-binding subunit -
  DSM105001_RS00425 (DSM105001_00089) radA 50846..52219 (+) 1374 WP_021364956.1 DNA repair protein RadA Machinery gene
  DSM105001_RS00430 (DSM105001_00090) disA 52222..53292 (+) 1071 WP_003421245.1 DNA integrity scanning diadenylate cyclase DisA -
  DSM105001_RS00435 (DSM105001_00091) - 53381..54475 (+) 1095 WP_009887799.1 PIN/TRAM domain-containing protein -
  DSM105001_RS00440 (DSM105001_00092) - 54604..56781 (+) 2178 WP_021364957.1 membrane protein -

Sequence

Protein


Download         Length: 457 a.a.        Molecular weight: 50288.16 Da        Isoelectric Point: 7.9858

>NTDB_id=284354 DSM105001_RS00425 WP_021364956.1 50846..52219(+) (radA) [Clostridioides difficile strain DSM 105001]
MAKIKTKYVCQSCGYETAKWLGKCPECTKWNTFVEEIDQKSTKKEVFIIDKSSSKPVSINSIESKEEERFTTDINELDRV
LGGGIVKGSLVLVGGDPGIGKSTLLIQVSSNVANLGKTVLYITGEESESQIKMRAKRLGINSEKLYIFAENNLSIIESYL
ESVNPELIILDSIQTVFSPEISSAPGTVSQIKEGTSKFMKISKKMGISTFIVGHVTKEGSLAGPKLLEHMVDTVLYFEGE
RYNTYRLVRAVKNRFGSTNELGVFEMRDLGLVELDNPSKILISEKPKDVAGSVIISTVEGTRPMLLELQALVSPTSFGIP
KRTSTGVDYNRVGMLLAVLEKRVGLQIQNQDVYINIVGGIKINEPSIDLGIAISVASSFRNIPIDEDIAVTGEVGLTGEV
RAVSFIEKRIAECKKLGFKKIVVPRSNYDVVKETKGIEIWPVDNLRQAINIVLGRNQ

Nucleotide


Download         Length: 1374 bp        

>NTDB_id=284354 DSM105001_RS00425 WP_021364956.1 50846..52219(+) (radA) [Clostridioides difficile strain DSM 105001]
ATGGCAAAAATAAAAACAAAATATGTATGTCAATCTTGTGGATATGAAACAGCTAAGTGGCTTGGTAAATGTCCAGAATG
TACAAAATGGAATACATTTGTAGAAGAAATAGACCAAAAAAGCACCAAAAAAGAGGTCTTTATAATAGATAAATCTTCAT
CTAAACCAGTCAGTATAAACTCAATAGAAAGTAAAGAAGAAGAGAGGTTTACAACAGATATAAACGAATTAGATAGAGTG
CTTGGAGGAGGTATAGTTAAAGGCTCTTTAGTGCTTGTTGGTGGTGACCCTGGTATAGGTAAATCAACACTTTTAATCCA
AGTATCTAGTAATGTTGCCAATTTAGGAAAAACTGTTTTATATATAACTGGAGAAGAATCAGAATCTCAAATAAAAATGA
GAGCTAAAAGATTAGGTATTAACTCAGAAAAATTATATATATTTGCTGAAAATAATTTAAGTATAATTGAATCTTATTTA
GAAAGTGTAAATCCAGAATTAATAATTCTAGACTCAATTCAAACTGTCTTCAGTCCAGAAATATCCTCGGCACCAGGAAC
TGTCAGCCAAATTAAAGAAGGTACTTCAAAATTCATGAAAATTTCTAAAAAAATGGGAATTTCAACGTTCATAGTTGGGC
ATGTTACAAAAGAAGGTTCACTAGCAGGACCAAAATTATTAGAGCATATGGTTGATACTGTTCTATATTTTGAAGGAGAA
AGATATAATACTTATAGATTAGTGAGAGCTGTTAAAAATCGATTTGGCTCAACTAATGAACTTGGAGTATTTGAAATGAG
GGATTTAGGATTAGTAGAACTTGACAATCCATCTAAAATTTTAATCTCTGAAAAACCAAAAGATGTAGCAGGTTCAGTAA
TAATATCTACTGTAGAAGGTACGAGACCAATGTTACTTGAATTGCAAGCATTAGTTTCTCCTACAAGTTTTGGTATACCA
AAAAGAACATCTACAGGAGTCGATTACAATAGAGTAGGTATGTTATTAGCAGTATTAGAAAAACGTGTTGGTTTGCAAAT
ACAAAATCAAGATGTCTATATAAACATAGTTGGAGGAATAAAGATAAATGAACCTTCAATTGATTTAGGGATAGCCATTT
CTGTAGCATCTAGTTTTAGAAATATACCGATAGATGAAGATATAGCTGTCACAGGAGAAGTTGGACTTACAGGAGAAGTC
AGAGCAGTAAGCTTTATAGAAAAGAGAATAGCTGAGTGTAAAAAACTTGGATTTAAAAAGATAGTAGTTCCTAGAAGTAA
TTATGATGTTGTAAAAGAGACCAAAGGCATAGAAATATGGCCAGTGGATAACTTAAGACAAGCTATAAATATAGTACTTG
GGAGGAATCAATAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(67-219)

Subunit ChlI of Mg-chelatase (ChlI)

(342-427)

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

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

57.112

100

0.571
  radA Streptococcus mitis NCTC 12261

51.101

99.344

0.508
  radA Streptococcus pneumoniae Rx1

51.101

99.344

0.508
  radA Streptococcus pneumoniae D39

51.101

99.344

0.508
  radA Streptococcus pneumoniae R6

51.101

99.344

0.508
  radA Streptococcus pneumoniae TIGR4

51.101

99.344

0.508
  radA Streptococcus mitis SK321

50.881

99.344

0.505

Multiple sequence alignment