Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   LVR30_RS09470 Genome accession   NZ_CP090356
Coordinates   2015677..2017059 (+) Length   460 a.a.
NCBI ID   WP_013024514.1    Uniprot ID   D4GJH6
Organism   Pantoea ananatis strain JBR-LB3-16     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2010677..2022059
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LVR30_RS09440 (LVR30_09445) rsmC 2011122..2012153 (-) 1032 WP_029570981.1 16S rRNA (guanine(1207)-N(2))-methyltransferase RsmC -
  LVR30_RS09445 (LVR30_09450) - 2012259..2012669 (+) 411 WP_013024509.1 DNA polymerase III subunit psi -
  LVR30_RS09450 (LVR30_09455) rimI 2012641..2013081 (+) 441 WP_014606647.1 ribosomal protein S18-alanine N-acetyltransferase -
  LVR30_RS09455 (LVR30_09460) yjjG 2013101..2013781 (+) 681 WP_014595280.1 pyrimidine 5'-nucleotidase -
  LVR30_RS09460 (LVR30_09465) - 2013910..2014578 (-) 669 WP_089517614.1 YtjB family periplasmic protein -
  LVR30_RS09465 (LVR30_09470) serB 2014686..2015663 (+) 978 WP_014595282.1 phosphoserine phosphatase -
  LVR30_RS09470 (LVR30_09475) radA 2015677..2017059 (+) 1383 WP_013024514.1 DNA repair protein RadA Machinery gene
  LVR30_RS09475 (LVR30_09480) nadR 2017152..2018390 (+) 1239 WP_014606644.1 multifunctional transcriptional regulator/nicotinamide-nucleotide adenylyltransferase/ribosylnicotinamide kinase NadR -
  LVR30_RS09480 (LVR30_09485) - 2018719..2019651 (+) 933 WP_089517612.1 winged helix-turn-helix domain-containing protein -
  LVR30_RS09485 (LVR30_09490) - 2019648..2020097 (+) 450 WP_014606642.1 hypothetical protein -
  LVR30_RS09490 (LVR30_09495) - 2020340..2020894 (+) 555 WP_014606641.1 fimbrial protein -
  LVR30_RS09495 (LVR30_09500) - 2020934..2021623 (+) 690 WP_019106382.1 molecular chaperone -

Sequence

Protein


Download         Length: 460 a.a.        Molecular weight: 49450.09 Da        Isoelectric Point: 7.6663

>NTDB_id=641675 LVR30_RS09470 WP_013024514.1 2015677..2017059(+) (radA) [Pantoea ananatis strain JBR-LB3-16]
MAKAAKRAFVCNECGADYPRWQGQCSACHAWNTITEVRIAASPAAARNERLSGYAGSAGTSRVQKLSEISLEALPRFSTS
FKEFDRVLGGGVVPGSAILIGGNPGAGKSTLLLQVMCRLAQNMKTLYVTGEESLQQVAMRAHRLGLPTENLNMLSETSIE
QICLIAEQEAPQIMVIDSIQVMHMADIQSSPGSVAQVRETAAYLTRFAKTRGVAIIMVGHVTKDGSLAGPKVLEHCIDCS
VLLDGDADSRFRTLRSHKNRFGAVNELGVFAMTEQGMREVSNPSAIFLSRGEEITSGSSVMVLWEGTRPLLVEIQALVDH
SMMGNPRRVAVGLEQNRLAILLAVLHRHGGLQMADQDVFVNVVGGVKVTETSADLALMLSMVSSLRDRPLPQDLVIFGEV
GLAGEIRPVPSGQERISEAAKHGFKRAIVPAGNAPKKPIEGMRVYSAKKLADALAILDDL

Nucleotide


Download         Length: 1383 bp        

>NTDB_id=641675 LVR30_RS09470 WP_013024514.1 2015677..2017059(+) (radA) [Pantoea ananatis strain JBR-LB3-16]
TTGGCCAAAGCGGCAAAACGCGCATTTGTTTGTAACGAGTGTGGCGCAGATTATCCGCGCTGGCAGGGGCAATGCAGCGC
CTGTCACGCCTGGAATACCATTACCGAGGTACGGATTGCCGCCTCACCCGCTGCAGCGCGCAATGAGCGCCTCAGCGGTT
ATGCGGGCAGTGCCGGGACCAGTCGGGTGCAAAAGCTGTCCGAAATCAGCCTGGAAGCCTTGCCCCGTTTCTCGACCAGC
TTTAAAGAATTTGACCGTGTGCTGGGCGGTGGCGTGGTGCCCGGCAGTGCCATTTTGATTGGTGGTAATCCCGGGGCCGG
TAAATCCACTTTGTTGCTGCAGGTCATGTGCCGCTTAGCGCAGAACATGAAAACGCTGTATGTCACCGGCGAAGAATCTT
TACAGCAGGTGGCAATGCGTGCCCATCGGCTGGGTTTGCCGACTGAAAACCTGAACATGCTGTCGGAAACCAGCATCGAA
CAGATCTGCCTGATCGCCGAGCAGGAAGCGCCGCAAATCATGGTCATCGACTCCATCCAGGTGATGCACATGGCCGATAT
CCAGTCTTCACCCGGCAGCGTCGCCCAGGTGCGCGAAACCGCCGCTTATCTGACGCGCTTTGCCAAAACCCGCGGCGTGG
CGATTATCATGGTGGGCCATGTCACCAAAGACGGATCGCTGGCCGGGCCGAAGGTCCTTGAGCACTGTATTGACTGTTCG
GTGCTGCTGGATGGCGATGCCGATTCGCGCTTCCGCACCTTGCGCAGCCATAAAAACCGTTTTGGTGCCGTGAATGAACT
GGGGGTTTTTGCCATGACGGAGCAGGGCATGCGTGAGGTGAGCAATCCTTCCGCCATTTTCCTGTCGCGCGGTGAAGAGA
TTACGTCGGGCAGTTCGGTCATGGTGCTGTGGGAAGGAACCCGGCCATTGCTGGTCGAGATTCAGGCGCTGGTGGACCAT
TCGATGATGGGGAATCCCCGTCGTGTTGCCGTCGGGCTTGAACAAAACCGCCTGGCGATTCTGCTGGCGGTACTGCATCG
TCACGGTGGATTGCAAATGGCGGATCAGGATGTGTTCGTCAACGTCGTGGGCGGCGTGAAAGTCACAGAAACCAGCGCCG
ACCTGGCGCTGATGCTGTCAATGGTTTCCAGCCTGCGCGATCGCCCCTTGCCGCAGGATCTGGTTATCTTTGGCGAAGTC
GGGCTGGCCGGCGAAATTCGCCCGGTGCCCAGCGGCCAGGAACGGATTTCAGAAGCGGCTAAACATGGCTTCAAACGGGC
GATTGTGCCTGCCGGTAACGCGCCGAAAAAGCCGATTGAGGGCATGCGCGTCTACAGCGCGAAAAAGTTGGCGGATGCGC
TGGCGATTCTCGATGACCTTTAA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(9-36)

AAA domain (AAA_25)

(87-225)

Subunit ChlI of Mg-chelatase (ChlI)

(347-433)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB D4GJH6

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

48.59

100

0.487
  radA Streptococcus mitis NCTC 12261

43.516

98.913

0.43
  radA Streptococcus pneumoniae Rx1

44.78

93.696

0.42
  radA Streptococcus pneumoniae D39

44.78

93.696

0.42
  radA Streptococcus pneumoniae R6

44.78

93.696

0.42
  radA Streptococcus pneumoniae TIGR4

44.78

93.696

0.42
  radA Streptococcus mitis SK321

44.78

93.696

0.42