Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   PNUC_RS07640 Genome accession   NC_009379
Coordinates   1536388..1537752 (-) Length   454 a.a.
NCBI ID   WP_011903298.1    Uniprot ID   A4SYW1
Organism   Polynucleobacter asymbioticus QLW-P1DMWA-1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1531388..1542752
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PNUC_RS07625 (Pnuc_1458) dapD 1533452..1534279 (+) 828 WP_011903295.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase -
  PNUC_RS07630 (Pnuc_1459) dapE 1534290..1535441 (+) 1152 WP_011903296.1 succinyl-diaminopimelate desuccinylase -
  PNUC_RS07635 (Pnuc_1460) prmB 1535479..1536375 (+) 897 WP_011903297.1 50S ribosomal protein L3 N(5)-glutamine methyltransferase -
  PNUC_RS07640 (Pnuc_1461) radA 1536388..1537752 (-) 1365 WP_011903298.1 DNA repair protein RadA Machinery gene
  PNUC_RS07645 (Pnuc_1462) - 1537807..1538238 (-) 432 WP_223245969.1 hypothetical protein -
  PNUC_RS07650 (Pnuc_1463) - 1538313..1540154 (-) 1842 WP_048812277.1 potassium transporter Kup -
  PNUC_RS07660 (Pnuc_1464) - 1540586..1540957 (-) 372 WP_011903301.1 hypothetical protein -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 48307.16 Da        Isoelectric Point: 7.3308

>NTDB_id=27924 PNUC_RS07640 WP_011903298.1 1536388..1537752(-) (radA) [Polynucleobacter asymbioticus QLW-P1DMWA-1]
MAKVKTIYICQSCGGTSAKWQGQCPSCQAWNTLEEGLPETTSNARFQCLAQSLPRQKLSAITAEDLPRFSTGVEEFDRVL
GGGLVPGGVVLLGGDPGIGKSTLLLQALAEMSSAGMNVLYSSGEESAAQIALRAKRIALDAPQLEVLAEIQLEKLISIMD
TVKPQVLVVDSIQTLYSEVLSSAPGSVAQVRECAAQLTRAAKSSGICVLMVGHVTKDGHLAGPRVLEHIVDTVLYFEGDT
HSSFRLVRSIKNRFGAVNELGVFAMTEKGLRGVTNPSAIFLSQHEQMVPGACVLVTQEGSRPLLVEIQALVDTAHVPNPR
RLAVGLEQARLAMLLAVLHRHAGIACFDQDVFLNAVGGVKISEPAADLAVLLAIQSSIRNRALPKELIVFGEVGLAGEIR
PCPRGQERLKEAAKLGFTVAIIPKANMPKTKIPGLKVIPVERIDQAIAAAAELN

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=27924 PNUC_RS07640 WP_011903298.1 1536388..1537752(-) (radA) [Polynucleobacter asymbioticus QLW-P1DMWA-1]
TTGGCTAAAGTCAAAACGATTTATATCTGCCAGTCCTGTGGTGGCACCTCTGCTAAATGGCAAGGTCAGTGTCCCTCATG
CCAAGCTTGGAACACTCTAGAAGAGGGTTTGCCAGAGACCACTTCGAATGCGCGTTTTCAGTGTTTGGCACAATCACTGC
CAAGGCAAAAATTGTCGGCCATTACTGCGGAAGATTTGCCGAGATTTAGTACTGGAGTAGAAGAGTTTGACCGCGTCTTA
GGTGGCGGATTGGTGCCCGGTGGAGTAGTTCTTTTGGGTGGTGATCCCGGCATTGGTAAATCTACTTTACTGTTGCAGGC
TTTAGCTGAGATGAGTTCTGCTGGTATGAATGTTCTCTACAGCAGCGGTGAAGAATCTGCGGCTCAAATTGCACTTCGTG
CAAAACGGATTGCCTTGGATGCACCTCAATTAGAAGTGTTGGCGGAAATTCAGTTAGAAAAACTCATTTCGATTATGGAT
ACCGTCAAGCCACAAGTGTTAGTGGTCGACTCTATTCAAACCTTGTATTCAGAAGTATTAAGTTCTGCACCGGGATCCGT
TGCTCAGGTCAGAGAGTGCGCAGCGCAATTAACTCGAGCAGCTAAATCGAGTGGAATTTGTGTATTGATGGTTGGACATG
TCACTAAAGATGGACATTTGGCGGGCCCTCGTGTCTTAGAGCACATTGTTGATACCGTCCTTTATTTTGAGGGCGATACT
CACTCTTCTTTCCGCCTAGTTCGCTCTATCAAGAATCGTTTTGGCGCAGTAAATGAGTTGGGCGTTTTCGCGATGACCGA
AAAAGGTTTGCGCGGAGTCACCAATCCTTCGGCTATATTCCTGTCACAGCACGAACAGATGGTGCCGGGCGCTTGTGTGT
TGGTTACGCAAGAGGGTAGTAGACCGCTTTTAGTCGAAATTCAGGCTTTAGTAGATACAGCACACGTTCCAAACCCGCGG
CGTTTAGCGGTTGGTCTAGAGCAAGCGCGTTTGGCAATGTTGTTAGCAGTTTTACATCGCCATGCTGGCATCGCCTGTTT
TGATCAAGATGTTTTCTTAAATGCGGTAGGTGGAGTCAAAATTTCTGAGCCCGCCGCTGACTTAGCGGTGCTGCTTGCTA
TTCAGTCATCTATTCGTAATCGTGCTTTACCTAAAGAGTTGATTGTTTTTGGTGAGGTAGGTTTGGCTGGAGAGATCCGT
CCTTGCCCGCGCGGGCAAGAGCGCTTAAAAGAGGCTGCTAAGTTGGGTTTTACCGTTGCCATTATTCCAAAAGCAAACAT
GCCCAAGACCAAAATACCTGGATTGAAAGTGATTCCGGTAGAGCGAATTGATCAGGCTATCGCAGCAGCTGCCGAACTTA
ATTAA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

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

(358-450)

AAA domain (AAA_25)

(78-218)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A4SYW1

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