Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   CDIF29688_RS00425 Genome accession   NZ_CP019858
Coordinates   50689..52062 (+) Length   457 a.a.
NCBI ID   WP_004453976.1    Uniprot ID   -
Organism   Clostridioides difficile strain DSM 29688     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 45689..57062
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CDIF29688_RS00405 (CDIF29688_00085) - 46069..46533 (+) 465 WP_003425587.1 CtsR family transcriptional regulator -
  CDIF29688_RS00410 (CDIF29688_00086) - 46540..47034 (+) 495 WP_003421255.1 UvrB/UvrC motif-containing protein -
  CDIF29688_RS00415 (CDIF29688_00087) - 47050..48075 (+) 1026 WP_021366029.1 protein arginine kinase -
  CDIF29688_RS00420 (CDIF29688_00088) - 48062..50509 (+) 2448 WP_003425582.1 ATP-dependent Clp protease ATP-binding subunit -
  CDIF29688_RS00425 (CDIF29688_00089) radA 50689..52062 (+) 1374 WP_004453976.1 DNA repair protein RadA Machinery gene
  CDIF29688_RS00430 (CDIF29688_00090) disA 52065..53135 (+) 1071 WP_004453975.1 DNA integrity scanning diadenylate cyclase DisA -
  CDIF29688_RS00435 (CDIF29688_00091) - 53224..54318 (+) 1095 WP_009887799.1 PIN/TRAM domain-containing protein -
  CDIF29688_RS00440 (CDIF29688_00092) - 54447..56624 (+) 2178 WP_021366025.1 hypothetical protein -
  CDIF29688_RS20705 - 56803..56967 (-) 165 WP_231301827.1 hypothetical protein -

Sequence

Protein


Download         Length: 457 a.a.        Molecular weight: 50274.09 Da        Isoelectric Point: 7.5943

>NTDB_id=218531 CDIF29688_RS00425 WP_004453976.1 50689..52062(+) (radA) [Clostridioides difficile strain DSM 29688]
MAKIKTKYVCQSCGYETAKWLGKCPECTKWNTFVEEIDQKSTKKEVFIIDKSSSKPVSINSIESKEEERFTTDINELDRV
LGGGIVKGSLVLVGGDPGIGKSTLLIQVSSNVANLGKTVLYITGEESESQIKMRAKRLGINSENLYIFAENNLSIIESYL
ESVNPELIILDSIQTVFSPEISSAPGTVSQIKEGTSKFMKISKKMGISTFIVGHVTKEGSLAGPKLLEHMVDTVLYFEGE
RYNTYRLVRAVKNRFGSTNELGVFEMRDLGLVELDNPSKILISEKPKDVAGSVIISTVEGTRPMLLELQALVSPTSFGIP
KRTSTGVDYNRVGMLLAVLEKRVGLQIQNQDVYINIVGGIKINEPSIDLGIAISVASSFRNIPIDEDIAVTGEVGLTGEV
RAVSFIEKRIAECKKLGFKKIVVPRSNYDVVKETKGIEIWPVDNLRQAINIVLGRNQ

Nucleotide


Download         Length: 1374 bp        

>NTDB_id=218531 CDIF29688_RS00425 WP_004453976.1 50689..52062(+) (radA) [Clostridioides difficile strain DSM 29688]
ATGGCAAAAATAAAAACAAAATATGTATGTCAATCTTGCGGATATGAAACAGCTAAATGGCTTGGTAAATGTCCAGAATG
TACAAAATGGAATACATTTGTAGAAGAAATAGACCAAAAAAGCACCAAAAAAGAGGTCTTTATAATAGATAAATCTTCAT
CTAAACCAGTCAGTATAAACTCAATAGAAAGTAAAGAAGAAGAGCGGTTTACAACAGATATAAATGAATTAGATAGAGTG
CTTGGAGGAGGTATAGTTAAAGGCTCTTTAGTGCTTGTTGGTGGTGACCCTGGTATAGGTAAATCAACACTTTTAATCCA
AGTATCTAGTAATGTTGCCAATTTAGGAAAAACTGTTTTATATATAACTGGAGAAGAATCAGAATCTCAAATAAAAATGA
GAGCAAAAAGATTAGGTATTAACTCAGAAAATTTATATATATTTGCTGAAAATAATTTAAGTATAATTGAATCTTATTTA
GAAAGTGTAAATCCAGAATTAATAATTCTAGACTCAATTCAAACTGTATTCAGTCCAGAAATATCCTCGGCACCAGGAAC
TGTCAGCCAAATTAAAGAAGGTACTTCAAAATTCATGAAAATTTCTAAAAAAATGGGAATTTCAACGTTCATAGTTGGGC
ATGTTACAAAAGAAGGTTCACTAGCAGGACCAAAATTATTAGAGCATATGGTTGATACTGTTCTATATTTTGAAGGAGAA
AGATATAATACTTATAGATTAGTAAGAGCTGTTAAAAATCGATTTGGTTCAACTAATGAACTTGGAGTGTTTGAAATGAG
GGATTTAGGATTAGTAGAACTTGATAATCCATCTAAAATTTTAATCTCTGAAAAACCAAAAGATGTAGCAGGTTCAGTAA
TAATATCTACTGTAGAAGGTACGAGACCAATGTTACTTGAATTGCAAGCATTAGTTTCTCCTACAAGTTTTGGTATACCA
AAAAGAACATCTACAGGAGTCGATTACAATAGAGTAGGGATGTTATTAGCAGTATTAGAAAAACGTGTTGGTTTGCAAAT
ACAAAATCAAGATGTCTATATAAACATAGTTGGAGGAATAAAGATAAATGAACCCTCAATTGATTTAGGGATAGCCATTT
CTGTAGCATCTAGTTTTAGAAATATACCGATAGATGAAGATATAGCTGTTACAGGAGAAGTGGGACTTACAGGAGAAGTT
AGAGCAGTAAGCTTTATAGAAAAAAGAATAGCTGAGTGTAAAAAACTTGGATTTAAAAAGATAGTAGTTCCTAGAAGTAA
TTATGATGTTGTAAAAGAGACCAAAGGCATAGAAATATGGCCAGTAGATAACTTAAGACAAGCTATAAATATAGTACTTG
GGAGGAATCAATAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(66-219)

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