Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   UNDYM_RS09710 Genome accession   NZ_AP018441
Coordinates   2157994..2159379 (+) Length   461 a.a.
NCBI ID   WP_162040865.1    Uniprot ID   -
Organism   Undibacterium sp. YM2     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2152994..2164379
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  UNDYM_RS09685 (UNDYM_1951) tsaB 2153411..2154121 (+) 711 WP_162040860.1 tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB -
  UNDYM_RS09690 (UNDYM_1952) rimI 2154133..2154597 (+) 465 WP_162040861.1 ribosomal protein S18-alanine N-acetyltransferase -
  UNDYM_RS09695 (UNDYM_1953) - 2154597..2155520 (+) 924 WP_162040862.1 uracil-DNA glycosylase family protein -
  UNDYM_RS09700 (UNDYM_1954) - 2155526..2156476 (+) 951 WP_232063904.1 DUF1853 family protein -
  UNDYM_RS09705 (UNDYM_1955) lplT 2156530..2157792 (-) 1263 WP_162040864.1 lysophospholipid transporter LplT -
  UNDYM_RS09710 (UNDYM_1956) radA 2157994..2159379 (+) 1386 WP_162040865.1 DNA repair protein RadA Machinery gene
  UNDYM_RS09715 (UNDYM_1957) hpnE 2159376..2160746 (-) 1371 WP_162040866.1 hydroxysqualene dehydroxylase HpnE -
  UNDYM_RS09720 (UNDYM_1958) hpnD 2160739..2161572 (-) 834 WP_162040867.1 presqualene diphosphate synthase HpnD -
  UNDYM_RS09725 (UNDYM_1960) - 2161990..2162838 (+) 849 WP_162040868.1 hypothetical protein -
  UNDYM_RS09730 (UNDYM_1961) - 2162955..2163659 (-) 705 WP_197740991.1 M24 family metallopeptidase -
  UNDYM_RS09735 (UNDYM_1962) - 2163695..2163907 (-) 213 WP_197740992.1 hypothetical protein -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 48998.63 Da        Isoelectric Point: 6.8982

>NTDB_id=69633 UNDYM_RS09710 WP_162040865.1 2157994..2159379(+) (radA) [Undibacterium sp. YM2]
MAKAKTNFTCTECGGIVNKWAGQCPACGQWNTLVETIVESVGNRFSAKPQGLAQSAPVLNLAEIEALDVPRFGTGIDEFD
RVLGGGLVAGGVVLIGGDPGIGKSTLLLQALANLAQIKRVLYVSGEESGAQIALRAKRLSLDAKDLQLQAEIQLEKILNS
LAEHKPQVVVIDSIQTMYSDALSSAPGSVAQVRECAAQLTRVAKTMDITMILVGHVTKEGALAGPRVLEHIVDTVLYFEG
DTHSSFRLVRAIKNRFGAVNELGVFAMTEKGLKGVSNPSALFLSQHDAQVAGSCVMVTQEGTRPLLVEIQALVDSSHAPN
ARRLSVGLEQNRLAMLLAVLHRHAGVAAFDQDVFINAVGGVKIAEPAADLAVLLAINSSMRNKPLPRGLVVFGEVGLAGE
IRPAPRGQERLREAAKLGFSIAMIPKSNAPKQKIEGLTIIGVDRIEEALSRIRDVDSEIPD

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=69633 UNDYM_RS09710 WP_162040865.1 2157994..2159379(+) (radA) [Undibacterium sp. YM2]
ATGGCAAAAGCAAAGACAAATTTTACCTGCACCGAGTGTGGTGGTATTGTTAATAAATGGGCTGGGCAGTGCCCGGCTTG
CGGGCAATGGAATACTCTCGTCGAAACTATCGTCGAATCAGTGGGTAACCGTTTTAGCGCAAAACCACAGGGGCTCGCGC
AATCTGCGCCGGTACTGAACCTGGCTGAAATTGAGGCGCTTGATGTACCACGCTTTGGTACCGGCATTGATGAATTTGAC
CGCGTGCTCGGTGGCGGGCTGGTTGCCGGCGGCGTGGTGCTGATAGGTGGTGACCCTGGCATAGGTAAATCCACTTTGCT
GTTGCAGGCGCTGGCCAATCTCGCACAGATAAAAAGAGTCTTGTATGTCAGTGGCGAAGAGTCGGGAGCACAAATCGCCC
TGCGCGCCAAGCGCCTGTCATTGGATGCCAAAGACTTGCAATTACAGGCTGAGATACAACTGGAAAAAATTCTCAATTCC
CTGGCTGAGCATAAGCCGCAAGTCGTGGTCATTGATTCCATCCAGACCATGTATTCAGATGCCCTGAGTTCTGCGCCCGG
CTCAGTTGCCCAGGTACGCGAATGTGCCGCCCAGTTGACACGTGTTGCCAAAACCATGGACATCACCATGATACTGGTCG
GCCATGTTACTAAAGAAGGTGCACTGGCCGGGCCACGTGTGCTTGAGCATATCGTTGATACGGTCTTGTATTTTGAAGGT
GATACCCATTCCAGTTTCCGCCTCGTGCGGGCGATTAAAAACCGTTTTGGTGCAGTCAATGAACTCGGTGTGTTTGCCAT
GACTGAAAAAGGCTTGAAGGGGGTATCCAATCCTTCTGCCTTGTTCCTGTCGCAGCATGATGCCCAGGTGGCTGGTTCTT
GCGTCATGGTCACGCAAGAGGGGACGCGGCCCTTGCTGGTAGAGATACAGGCACTGGTTGACAGTTCGCATGCCCCTAAT
GCCCGTCGTTTGTCAGTAGGCTTGGAGCAAAACCGTCTGGCCATGTTGCTGGCGGTGTTGCACAGGCATGCAGGTGTGGC
GGCTTTTGATCAGGATGTGTTTATCAATGCTGTAGGTGGCGTCAAGATTGCAGAACCAGCCGCCGATCTGGCCGTGTTGC
TGGCGATTAACTCTTCGATGCGTAATAAACCCTTGCCGCGTGGACTGGTGGTGTTTGGTGAGGTCGGGCTGGCGGGTGAG
ATACGCCCAGCGCCACGCGGGCAAGAACGCTTGCGCGAAGCGGCCAAGCTGGGCTTTTCGATTGCGATGATCCCAAAATC
AAATGCGCCCAAACAAAAAATCGAAGGCCTGACCATCATAGGTGTGGACAGGATAGAAGAGGCCCTGTCCAGAATCCGTG
ATGTCGATAGCGAAATCCCGGATTAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(67-220)

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

49.451

98.698

0.488
  radA Streptococcus pneumoniae Rx1

47.046

99.132

0.466
  radA Streptococcus pneumoniae R6

47.046

99.132

0.466
  radA Streptococcus pneumoniae TIGR4

47.046

99.132

0.466
  radA Streptococcus pneumoniae D39

47.046

99.132

0.466
  radA Streptococcus mitis SK321

47.149

98.915

0.466
  radA Streptococcus mitis NCTC 12261

47.149

98.915

0.466

Multiple sequence alignment