Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DPM16_RS02860 Genome accession   NZ_CP030086
Coordinates   546108..547472 (+) Length   454 a.a.
NCBI ID   WP_112318158.1    Uniprot ID   -
Organism   Polynucleobacter paneuropaeus strain MWH-Creno-4B4     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 541108..552472
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DPM16_RS02850 (DPM16_02850) - 543626..545566 (+) 1941 WP_112318156.1 potassium transporter Kup -
  DPM16_RS02855 (DPM16_02855) - 545635..546069 (+) 435 WP_227868610.1 hypothetical protein -
  DPM16_RS02860 (DPM16_02860) radA 546108..547472 (+) 1365 WP_112318158.1 DNA repair protein RadA Machinery gene
  DPM16_RS02865 (DPM16_02865) prmB 547469..548365 (-) 897 WP_112209045.1 50S ribosomal protein L3 N(5)-glutamine methyltransferase -
  DPM16_RS02870 (DPM16_02870) dapE 548395..549546 (-) 1152 WP_112318159.1 succinyl-diaminopimelate desuccinylase -
  DPM16_RS02875 (DPM16_02875) dapD 549553..550380 (-) 828 WP_112237815.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 48369.20 Da        Isoelectric Point: 7.6369

>NTDB_id=299023 DPM16_RS02860 WP_112318158.1 546108..547472(+) (radA) [Polynucleobacter paneuropaeus strain MWH-Creno-4B4]
MAKAKTIYVCQSCGGTSAKWQGQCPSCQAWNTMEEGLPESSTPSRFQGLAQSLPRQKLAAITAEDLPRFSTGVEEFDRVL
GGGLVPGGVVLLGGDPGIGKSTLLLQALAEMSSAGMHVLYSSGEESAAQIALRAKRIALEAPALEVLAEIQLEKLLSIME
TVKPQVLVVDSIQTLYSEAFSSAPGSVAQVRECAAQLTRAAKSSGICVLMVGHVTKDGHLAGPRVLEHIVDTVLYFEGDT
HSSFRLVRSIKNRFGAVNELGVFAMTEKGLRGVSNPSAIFLSQHEQMVPGACVLVTQEGTRPLLVEIQALVDTAHIPNPR
RLAVGLEQHRLAMLLAVLHRHAGVACFDQDVFLNAVGGVKINEPAADLAVLLAIQSSIRNRALPKELIVFGEVGLAGEIR
PCPRGQERLKEAAKLGFKLAIIPKANMPKNKIPGLKVIPVERIDQAIAAANELS

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=299023 DPM16_RS02860 WP_112318158.1 546108..547472(+) (radA) [Polynucleobacter paneuropaeus strain MWH-Creno-4B4]
TTGGCTAAAGCTAAAACGATTTATGTCTGTCAATCATGTGGCGGAACTTCTGCCAAATGGCAAGGGCAGTGTCCTTCCTG
TCAGGCTTGGAACACAATGGAGGAAGGACTTCCTGAGTCGAGTACACCATCCCGCTTTCAGGGTTTGGCTCAATCTTTGC
CAAGACAAAAACTTGCAGCAATTACTGCGGAAGATTTACCTCGTTTTAGTACTGGGGTAGAAGAGTTCGATCGCGTTTTA
GGTGGTGGCTTAGTTCCGGGCGGTGTTGTACTTTTGGGTGGCGATCCCGGCATTGGTAAATCCACCTTGTTACTTCAGGC
TTTGGCTGAGATGAGTTCAGCTGGTATGCATGTTCTCTACAGTAGTGGTGAAGAGTCAGCTGCGCAAATTGCATTGCGGG
CTAAACGGATTGCCTTAGAAGCTCCTGCGCTTGAAGTATTGGCTGAGATTCAGCTAGAGAAGCTGTTGTCCATCATGGAA
ACCGTGAAGCCTCAAGTGCTCGTGGTGGACTCTATTCAAACTTTGTATTCAGAAGCCTTCAGTTCTGCGCCAGGCTCAGT
AGCCCAGGTGCGTGAGTGTGCCGCACAACTCACGAGGGCTGCCAAGTCCAGTGGCATCTGTGTGTTGATGGTTGGGCATG
TCACCAAAGACGGTCATCTTGCTGGTCCTCGTGTCTTAGAACATATTGTGGATACGGTTTTGTATTTTGAGGGCGATACG
CATTCTTCATTTAGATTGGTGCGTTCGATTAAAAACCGCTTTGGCGCTGTCAATGAGCTCGGTGTTTTTGCGATGACTGA
AAAAGGTCTGCGTGGTGTATCGAATCCATCAGCGATTTTCTTATCGCAGCACGAACAGATGGTGCCAGGAGCTTGTGTTC
TGGTAACGCAAGAAGGTACCAGACCACTCTTAGTGGAGATCCAGGCTTTAGTTGATACCGCCCATATCCCCAACCCAAGA
AGATTGGCGGTAGGGTTGGAGCAGCATCGCTTGGCAATGCTGCTGGCGGTCTTACATCGTCATGCTGGGGTCGCTTGCTT
TGATCAAGACGTATTCTTAAACGCAGTAGGCGGCGTCAAAATCAATGAGCCTGCTGCTGACTTAGCTGTTCTACTCGCTA
TTCAATCCTCGATTCGAAATCGTGCACTACCCAAAGAATTGATCGTCTTCGGTGAAGTCGGTTTAGCTGGGGAGATTCGC
CCATGCCCGAGAGGTCAGGAACGATTGAAGGAAGCTGCCAAATTGGGCTTTAAGCTTGCAATCATTCCGAAGGCCAATAT
GCCAAAGAATAAAATTCCGGGACTTAAAGTAATCCCTGTTGAAAGAATTGACCAGGCGATTGCTGCAGCGAATGAGCTGA
GCTAG

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(359-426)

AAA domain (AAA_25)

(79-218)

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

49.558

99.559

0.493
  radA Streptococcus pneumoniae Rx1

46.222

99.119

0.458
  radA Streptococcus pneumoniae D39

46.222

99.119

0.458
  radA Streptococcus pneumoniae R6

46.222

99.119

0.458
  radA Streptococcus pneumoniae TIGR4

46.222

99.119

0.458
  radA Streptococcus mitis NCTC 12261

47.14

96.256

0.454
  radA Streptococcus mitis SK321

47.14

96.256

0.454

Multiple sequence alignment