Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   PKF022_RS02840 Genome accession   NZ_AP026972
Coordinates   534423..535787 (+) Length   454 a.a.
NCBI ID   WP_281777146.1    Uniprot ID   -
Organism   Polynucleobacter sp. KF022     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 529423..540787
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PKF022_RS02815 (PKF022_05470) - 529499..531211 (+) 1713 WP_281777143.1 DNA internalization-related competence protein ComEC/Rec2 -
  PKF022_RS02820 (PKF022_05480) - 531240..531611 (+) 372 WP_281777144.1 glycine zipper family protein -
  PKF022_RS02830 (PKF022_05490) - 532042..533883 (+) 1842 WP_281777458.1 potassium transporter Kup -
  PKF022_RS02835 (PKF022_05500) - 533880..534389 (+) 510 WP_281777145.1 hypothetical protein -
  PKF022_RS02840 (PKF022_05510) radA 534423..535787 (+) 1365 WP_281777146.1 DNA repair protein RadA Machinery gene
  PKF022_RS02845 (PKF022_05520) prmB 535788..536684 (-) 897 WP_281777147.1 50S ribosomal protein L3 N(5)-glutamine methyltransferase -
  PKF022_RS02850 (PKF022_05530) dapE 536729..537880 (-) 1152 WP_281777148.1 succinyl-diaminopimelate desuccinylase -
  PKF022_RS02855 (PKF022_05540) dapD 537890..538717 (-) 828 WP_216231477.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 48175.97 Da        Isoelectric Point: 7.3470

>NTDB_id=99156 PKF022_RS02840 WP_281777146.1 534423..535787(+) (radA) [Polynucleobacter sp. KF022]
MAKVKTVYICQSCGGTSAKWQGQCPSCQAWNTLEEGLPETTSNARFQGLAQSLPRQKLSAITAEDLPRFSTGVEEFDRVL
GGGLVPGGVVLLGGDPGIGKSTLLLQALAEMSAAGMNVLYSSGEESAAQIALRAKRIALDAPQLEVLAEIQLEKLISIMD
SVKPQVLVVDSIQTLYSEVLSSAPGSVAQVRECAAQLTRAAKSSGICVLMVGHVTKDGHLAGPRVLEHIVDTVLYFEGDT
HSSFRLVRSIKNRFGAVNELGVFAMTEKGLRGVTNPSAIFLSQHEQMVPGACVLVTQEGSRPLLVEIQALVDTAHVPNPR
RLAVGLEQARLAMLLAVLHRHAGVACFDQDVFLNAVGGVKISEPAADLAVLLAIQSSIRNRALPKELIVFGEVGLAGEIR
PCPRGQERLKEAAKLGFTVAIIPKANMPKTKIPGLKVIPVERIDQAIAAAAELS

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=99156 PKF022_RS02840 WP_281777146.1 534423..535787(+) (radA) [Polynucleobacter sp. KF022]
TTGGCTAAAGTCAAAACGGTTTATATATGCCAGTCTTGTGGCGGTACCTCTGCAAAGTGGCAGGGTCAGTGCCCATCTTG
TCAGGCCTGGAATACCTTGGAAGAGGGTCTTCCAGAAACCACCTCGAATGCTCGATTTCAGGGGTTGGCGCAATCGTTGC
CACGGCAAAAGCTTTCTGCCATTACTGCTGAAGATTTGCCAAGATTCAGTACTGGAGTAGAAGAGTTTGATCGCGTACTA
GGCGGAGGTTTAGTGCCTGGTGGCGTAGTGCTCTTGGGTGGCGACCCTGGAATTGGTAAATCTACTTTGTTGTTGCAGGC
GCTTGCCGAGATGAGTGCTGCCGGTATGAATGTCCTCTATAGCAGTGGCGAAGAATCGGCTGCTCAGATTGCATTACGTG
CAAAACGTATTGCATTGGACGCTCCTCAATTAGAGGTCTTGGCAGAGATTCAGTTGGAGAAACTGATTTCGATAATGGAT
TCCGTGAAGCCACAAGTATTGGTCGTGGACTCTATTCAGACTTTGTACTCAGAGGTACTCAGTTCGGCTCCTGGTTCTGT
AGCCCAAGTGCGCGAGTGCGCAGCCCAATTAACCAGAGCTGCTAAATCGAGTGGCATTTGCGTATTGATGGTAGGTCACG
TGACTAAGGATGGTCACCTCGCTGGCCCTAGAGTTTTAGAGCACATTGTTGATACTGTTTTGTATTTTGAAGGTGACACC
CATTCTTCTTTTCGTTTAGTGCGCTCCATTAAGAATCGTTTCGGTGCTGTCAATGAGTTGGGTGTATTTGCCATGACAGA
AAAAGGCTTGCGGGGCGTTACTAATCCATCAGCTATTTTCTTGTCACAACATGAGCAAATGGTTCCAGGCGCTTGCGTAC
TAGTCACGCAAGAAGGTAGCAGACCTTTGTTGGTAGAGATTCAGGCCCTAGTTGATACAGCGCATGTACCCAATCCTCGC
CGCTTAGCTGTTGGCCTGGAGCAGGCTCGCTTAGCCATGCTCTTGGCGGTATTACATCGTCATGCCGGCGTGGCTTGCTT
TGATCAGGACGTTTTCTTAAATGCGGTAGGTGGCGTCAAGATTTCTGAGCCAGCTGCGGACTTAGCCGTCTTGCTAGCAA
TTCAATCATCGATTCGTAACCGCGCATTACCAAAAGAGTTAATCGTGTTTGGTGAGGTTGGTTTGGCTGGAGAGATTCGC
CCTTGTCCCCGTGGTCAGGAACGTTTGAAAGAGGCGGCTAAGTTGGGCTTCACCGTAGCCATCATTCCAAAAGCCAATAT
GCCTAAAACTAAAATTCCAGGCTTAAAGGTAATTCCAGTTGAAAGAATTGATCAGGCTATTGCCGCAGCTGCAGAACTGA
GTTAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(78-218)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

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

(357-450)


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

49.336

99.559

0.491
  radA Streptococcus pneumoniae Rx1

46

99.119

0.456
  radA Streptococcus pneumoniae D39

46

99.119

0.456
  radA Streptococcus pneumoniae R6

46

99.119

0.456
  radA Streptococcus pneumoniae TIGR4

46

99.119

0.456
  radA Streptococcus mitis NCTC 12261

46

99.119

0.456
  radA Streptococcus mitis SK321

46

99.119

0.456

Multiple sequence alignment