Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   AOC34_RS06680 Genome accession   NZ_CP023276
Coordinates   1311505..1312872 (-) Length   455 a.a.
NCBI ID   WP_108469338.1    Uniprot ID   -
Organism   Polynucleobacter difficilis strain AM-8B5     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1306505..1317872
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AOC34_RS06665 dapD 1308579..1309406 (+) 828 WP_108469335.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase -
  AOC34_RS06670 dapE 1309409..1310560 (+) 1152 WP_108469336.1 succinyl-diaminopimelate desuccinylase -
  AOC34_RS06675 prmB 1310565..1311473 (+) 909 WP_108469337.1 50S ribosomal protein L3 N(5)-glutamine methyltransferase -
  AOC34_RS06680 radA 1311505..1312872 (-) 1368 WP_108469338.1 DNA repair protein RadA Machinery gene
  AOC34_RS06685 - 1312884..1313393 (-) 510 WP_108469339.1 hypothetical protein -
  AOC34_RS06690 - 1313390..1315231 (-) 1842 WP_234408179.1 potassium transporter Kup -
  AOC34_RS06700 - 1315707..1315877 (+) 171 WP_159074831.1 hypothetical protein -
  AOC34_RS06705 - 1315933..1316115 (+) 183 WP_108469342.1 hypothetical protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 48280.03 Da        Isoelectric Point: 7.6199

>NTDB_id=245697 AOC34_RS06680 WP_108469338.1 1311505..1312872(-) (radA) [Polynucleobacter difficilis strain AM-8B5]
MAKAKTIYVCNACGGSTPRWQGQCPACQAWNTLEESLSESTSTNARFQGLAQAVPRQKLSAIKAEDMPRLPTGVDEFDRV
LGGGLVPGGVVLIGGDPGIGKSTLLLQALAEMSAAGVSVLYSSGEESAAQIALRAKRIVLAAPQLEVLAEIQLEKLLTTI
DAARPQVVVVDSIQTVYSDALTSAPGSVAQVRECAAQLTRYAKSTGICMLMVGHVTKDGHLAGPRVLEHIVDTVLYFEGD
THSSFRLVRSIKNRFGAVNELGVFAMTEKGLKGVSNPSAIFLSQHAEMVPGACVLVTQEGSRPLLVEIQALVDTAHIPNP
RRLAVGLEQHRLAMLLAVLHRHAGIACFDQDVFLNAVGGVKISEPAADLAVLLAIQSSIRNRALPKELIVFGEVGLAGEI
RPCPRGQERLKEAAKLGFTIAIIPKANLPKSKIPGLRVIPVERIDEAISAANELS

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=245697 AOC34_RS06680 WP_108469338.1 1311505..1312872(-) (radA) [Polynucleobacter difficilis strain AM-8B5]
TTGGCAAAAGCAAAAACCATTTATGTTTGTAATGCCTGCGGCGGCAGTACCCCGCGTTGGCAGGGGCAGTGCCCTGCATG
CCAAGCTTGGAACACGTTAGAGGAAAGCCTTTCTGAATCAACCTCCACGAATGCCCGCTTTCAGGGTTTAGCGCAAGCTG
TACCCCGTCAAAAGTTATCGGCCATCAAGGCCGAGGATATGCCGCGATTGCCAACTGGCGTAGATGAATTTGACCGCGTC
CTCGGTGGCGGTCTAGTGCCTGGCGGTGTTGTCCTGATCGGCGGTGATCCGGGTATCGGAAAATCGACACTATTGTTGCA
AGCCTTGGCAGAAATGAGCGCTGCTGGCGTTTCCGTTTTATACAGCAGTGGCGAAGAATCGGCTGCGCAGATTGCGCTGC
GAGCAAAACGCATTGTCTTGGCTGCTCCGCAGTTGGAGGTTCTTGCAGAGATCCAACTCGAAAAATTATTGACTACCATT
GATGCCGCCCGCCCCCAAGTGGTCGTGGTGGATTCCATTCAGACGGTTTACTCCGATGCTTTAACTTCGGCGCCGGGTTC
AGTTGCACAGGTGCGTGAGTGCGCTGCGCAGCTTACCCGCTATGCTAAATCCACTGGCATTTGCATGCTGATGGTGGGGC
ACGTGACCAAAGACGGTCATCTTGCTGGCCCGCGGGTGCTGGAGCACATTGTCGATACCGTGCTTTACTTTGAGGGTGAT
ACCCACTCATCATTCCGTTTAGTGCGCTCGATTAAAAATCGCTTTGGCGCAGTGAATGAGCTTGGTGTATTTGCCATGAC
CGAAAAAGGCCTGAAGGGCGTCTCTAATCCATCGGCCATCTTTTTATCGCAGCATGCGGAGATGGTGCCGGGTGCTTGCG
TGCTTGTTACCCAAGAAGGTAGCCGTCCCTTATTGGTTGAAATTCAGGCCTTAGTAGATACCGCCCACATTCCCAATCCA
AGGCGCTTGGCAGTCGGCCTCGAGCAGCATCGACTGGCTATGTTGCTGGCGGTATTGCATCGCCACGCGGGGATTGCCTG
CTTTGATCAAGACGTCTTTCTGAATGCGGTGGGTGGTGTGAAGATCTCTGAGCCGGCGGCTGATTTAGCTGTGCTCCTGG
CAATTCAATCGTCGATTCGGAATCGCGCCTTGCCGAAAGAGTTAATCGTATTTGGTGAGGTGGGTTTGGCGGGAGAAATC
CGCCCTTGTCCACGCGGTCAAGAGCGCCTCAAAGAAGCCGCCAAACTCGGCTTTACGATTGCCATCATTCCGAAAGCCAA
TCTACCCAAGAGCAAAATCCCCGGCTTGCGCGTCATTCCCGTGGAGCGTATTGATGAGGCTATCTCTGCAGCTAACGAAC
TCAGTTAG

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(79-219)

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

(360-451)


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

49.779

99.341

0.495
  radA Streptococcus mitis NCTC 12261

45.778

98.901

0.453
  radA Streptococcus pneumoniae D39

45.556

98.901

0.451
  radA Streptococcus pneumoniae TIGR4

45.556

98.901

0.451
  radA Streptococcus mitis SK321

45.556

98.901

0.451
  radA Streptococcus pneumoniae R6

45.556

98.901

0.451
  radA Streptococcus pneumoniae Rx1

45.556

98.901

0.451

Multiple sequence alignment