Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DXE44_RS06080 Genome accession   NZ_LT606946
Coordinates   1172949..1174307 (-) Length   452 a.a.
NCBI ID   WP_114653488.1    Uniprot ID   -
Organism   Polynucleobacter necessarius isolate PPGSP5     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1167949..1179307
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DXE44_RS06065 dapD 1170015..1170842 (+) 828 WP_114653482.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase -
  DXE44_RS06070 dapE 1170852..1172003 (+) 1152 WP_114653484.1 succinyl-diaminopimelate desuccinylase -
  DXE44_RS06075 prmB 1172040..1172936 (+) 897 WP_114653486.1 50S ribosomal protein L3 N(5)-glutamine methyltransferase -
  DXE44_RS06080 radA 1172949..1174307 (-) 1359 WP_114653488.1 DNA repair protein RadA Machinery gene
  DXE44_RS06085 - 1174353..1174844 (-) 492 WP_114653490.1 hypothetical protein -
  DXE44_RS06090 - 1174859..1176703 (-) 1845 WP_415065264.1 potassium transporter Kup -
  DXE44_RS06100 - 1177213..1178181 (+) 969 WP_114653492.1 tripartite tricarboxylate transporter substrate binding protein BugE -
  DXE44_RS06105 - 1178323..1178604 (-) 282 WP_162785890.1 hypothetical protein -
  DXE44_RS06110 - 1178615..1179148 (-) 534 WP_162785891.1 hypothetical protein -

Sequence

Protein


Download         Length: 452 a.a.        Molecular weight: 47945.75 Da        Isoelectric Point: 7.1018

>NTDB_id=1145189 DXE44_RS06080 WP_114653488.1 1172949..1174307(-) (radA) [Polynucleobacter necessarius isolate PPGSP5]
MAKIKTIYICQSCGGTSAKWQGQCPSCQAWNTLEEGLPEVSSNTRFQGLAQSLPRQKLSAISAEDLPRFSTGVEEFDRVL
GGGLVPGGVVLLGGDPGIGKSTLLLQALAEMSAAGMNVLYSSGEESAAQIALRAKRIALDAPQLEVLAEIQLEKLLSIMD
TVKPQVLVVDSIQTLYSEVLSSAPGSVAQVRECAAQLTRAAKSSGICVLMVGHVTKDGHLAGPRVLEHIVDTVLYFEGDT
HSSFRLVRSIKNRFGAVNELGVFAMTEKGLRGVANPSAIFLSQHAEMVPGACVLVTQEGSRPLLVEIQALVDTAHIPNPR
RLAVGLEQARLAMLLAVLHRHAGIACFDQDVFLNAVGGVKISEPAADLAVLLAIQSSIRNKALPKELIVFGEVGLAGEIR
PCPRGQERLKEAAKLGFTVAIIPKANMPKIPGLRVIPVERIDQAISAAAELS

Nucleotide


Download         Length: 1359 bp        

>NTDB_id=1145189 DXE44_RS06080 WP_114653488.1 1172949..1174307(-) (radA) [Polynucleobacter necessarius isolate PPGSP5]
TTGGCCAAGATTAAAACAATCTATATCTGTCAGTCATGCGGTGGAACCTCTGCTAAGTGGCAAGGACAATGCCCTTCATG
CCAGGCATGGAATACGCTAGAAGAAGGTTTGCCTGAGGTGAGCTCGAATACCCGTTTTCAGGGTTTAGCGCAGTCACTCC
CTCGTCAAAAACTTTCCGCTATCAGTGCTGAAGATCTCCCGCGCTTTAGTACTGGCGTCGAAGAGTTTGATCGTGTGTTG
GGTGGTGGATTAGTTCCTGGTGGAGTTGTTTTGTTAGGCGGAGATCCAGGTATTGGTAAATCAACCTTACTACTACAGGC
GCTTGCAGAGATGAGTGCTGCTGGCATGAATGTTCTTTACAGTAGCGGTGAAGAATCTGCTGCGCAAATTGCATTACGAG
CAAAACGGATTGCATTGGATGCCCCTCAATTAGAAGTACTGGCAGAAATTCAGCTGGAAAAACTCTTATCCATTATGGAT
ACGGTGAAGCCGCAGGTCTTGGTGGTGGACTCTATTCAGACCTTATATTCAGAAGTATTGAGTTCAGCTCCAGGTTCTGT
TGCGCAAGTGCGCGAGTGTGCTGCGCAACTGACGAGAGCTGCAAAATCCAGTGGCATCTGTGTCTTGATGGTGGGGCATG
TGACAAAAGATGGTCACTTAGCTGGTCCCCGTGTGCTTGAGCACATTGTCGATACAGTTCTCTACTTTGAGGGTGATACT
CACTCTTCGTTTAGATTGGTGCGCTCGATTAAAAACCGTTTTGGCGCAGTCAATGAGCTCGGTGTATTTGCCATGACTGA
AAAAGGTTTGCGTGGTGTTGCTAATCCTTCTGCCATTTTCCTATCCCAGCATGCGGAGATGGTGCCTGGTGCCTGTGTAT
TGGTAACGCAAGAGGGTAGTCGCCCACTCTTGGTAGAAATTCAGGCTTTAGTAGATACAGCGCATATCCCTAATCCAAGA
AGATTGGCGGTTGGACTAGAGCAAGCTCGTCTTGCAATGTTGTTGGCCGTCTTGCATCGTCATGCTGGTATAGCGTGCTT
TGATCAAGACGTCTTCTTAAACGCAGTGGGTGGCGTGAAGATCTCCGAGCCAGCAGCTGACTTGGCAGTGTTATTAGCAA
TTCAATCTTCAATTCGGAATAAAGCCTTGCCTAAAGAGTTAATTGTCTTTGGTGAGGTTGGTTTGGCTGGAGAGATTCGA
CCATGTCCACGTGGCCAGGAGCGCCTGAAAGAAGCGGCTAAGCTTGGCTTTACGGTGGCAATTATTCCGAAGGCCAATAT
GCCAAAGATTCCGGGATTAAGGGTGATACCAGTAGAGCGAATTGATCAAGCCATCTCTGCCGCTGCGGAGCTCAGCTAA

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)

(358-443)


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

48.791

100

0.491
  radA Streptococcus mitis NCTC 12261

46.759

95.575

0.447
  radA Streptococcus pneumoniae Rx1

46.759

95.575

0.447
  radA Streptococcus pneumoniae D39

46.759

95.575

0.447
  radA Streptococcus pneumoniae R6

46.759

95.575

0.447
  radA Streptococcus pneumoniae TIGR4

46.759

95.575

0.447
  radA Streptococcus mitis SK321

46.759

95.575

0.447

Multiple sequence alignment