Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   A4U99_RS09550 Genome accession   NZ_CP015406
Coordinates   1939551..1940924 (+) Length   457 a.a.
NCBI ID   WP_044940202.1    Uniprot ID   A0AAX1KJE4
Organism   Flavonifractor plautii strain YL31     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 1936110..1950786 1939551..1940924 within 0


Gene organization within MGE regions


Location: 1936110..1950786
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A4U99_RS09525 (A4U99_09335) - 1936110..1936811 (-) 702 WP_035300162.1 ABC transporter ATP-binding protein -
  A4U99_RS09530 (A4U99_09340) - 1936975..1937571 (-) 597 WP_007488978.1 manganese catalase family protein -
  A4U99_RS09535 (A4U99_09345) - 1937572..1938030 (-) 459 WP_024724094.1 spore coat protein CotJB -
  A4U99_RS09540 (A4U99_09350) - 1938216..1938674 (-) 459 WP_236940104.1 YhcH/YjgK/YiaL family protein -
  A4U99_RS09545 (A4U99_09355) - 1938802..1939554 (+) 753 WP_021631794.1 N-acetylmuramoyl-L-alanine amidase -
  A4U99_RS09550 (A4U99_09360) radA 1939551..1940924 (+) 1374 WP_044940202.1 DNA repair protein RadA Machinery gene
  A4U99_RS09555 (A4U99_09365) - 1941257..1941475 (-) 219 WP_024724091.1 helix-turn-helix domain-containing protein -
  A4U99_RS09560 (A4U99_09370) - 1941673..1941897 (+) 225 WP_007488969.1 hypothetical protein -
  A4U99_RS09565 (A4U99_09375) - 1942639..1943622 (+) 984 WP_065534725.1 rolling circle replication-associated protein -
  A4U99_RS09570 (A4U99_09380) - 1943715..1944026 (+) 312 WP_065534726.1 hypothetical protein -
  A4U99_RS09575 (A4U99_18470) - 1944201..1944725 (+) 525 WP_007489507.1 tyrosine-type recombinase/integrase -
  A4U99_RS09580 (A4U99_09390) - 1944825..1945853 (+) 1029 WP_065534728.1 tyrosine recombinase XerC -
  A4U99_RS09585 (A4U99_09395) - 1945893..1947371 (-) 1479 WP_236940105.1 hypothetical protein -
  A4U99_RS09590 (A4U99_09400) - 1947541..1948074 (-) 534 WP_009256855.1 amidase domain-containing protein -
  A4U99_RS09595 (A4U99_09405) ligA 1948155..1950155 (-) 2001 WP_065534730.1 NAD-dependent DNA ligase LigA -
  A4U99_RS09600 (A4U99_09410) - 1950097..1950786 (-) 690 WP_065534731.1 VanZ family protein -

Sequence

Protein


Download         Length: 457 a.a.        Molecular weight: 49041.52 Da        Isoelectric Point: 5.8607

>NTDB_id=179209 A4U99_RS09550 WP_044940202.1 1939551..1940924(+) (radA) [Flavonifractor plautii strain YL31]
MKAKTLFYCTECGNETPKWSGQCPACRAWNTLVERPAEPKKRSAAAASVAGGGLRGTGNRPRPMREVETTHELRFETGMN
ELDRVLGGGAVKGSLVLVGGAPGIGKSTLMLQICDNLCRFASVLYVSGEESERQIKLRAERLHVRGEGMYLLAETNLEDV
LESVNELKPDVLIVDSIQTLYNGDLTTAPGSVGQVKDCTMALMQLAKGQGITVFVIGHVNKEGSIAGPKVLEHMVDCVLY
FEGEQQNSYRILRAAKNRFGATNEIGVFEMEDSGLSEVPNPSEMLLSGRPQDTPGTCVTCVMEGVRPVLAEVQALLAPTS
FNVPRRTANGFDFNRANLLLAVLEKRGGLMVSSCDAYINVIGGLFLDEPAADLAMIVALASSFRDKPVPGDLAAIGEVGL
TGELRSVNALGQRLSEVRRLGFTKCLIPARTGGKLDAPDGLQLIPVRNIREALAALL

Nucleotide


Download         Length: 1374 bp        

>NTDB_id=179209 A4U99_RS09550 WP_044940202.1 1939551..1940924(+) (radA) [Flavonifractor plautii strain YL31]
ATGAAAGCAAAAACACTGTTTTATTGTACCGAGTGCGGAAATGAAACCCCAAAGTGGTCCGGCCAATGTCCCGCCTGCCG
GGCATGGAATACCCTTGTGGAGCGGCCGGCAGAGCCGAAAAAAAGGAGTGCGGCCGCCGCCTCTGTCGCTGGGGGCGGCC
TGCGGGGAACCGGCAACCGGCCCAGGCCCATGCGCGAGGTGGAAACCACCCACGAGCTCCGCTTTGAAACCGGGATGAAT
GAGCTGGACCGGGTGCTGGGCGGGGGAGCGGTGAAGGGCTCTCTGGTGCTGGTGGGGGGTGCCCCCGGCATCGGCAAGTC
CACCCTGATGCTCCAGATCTGCGACAACCTGTGCCGTTTTGCCTCTGTGCTCTATGTCTCCGGGGAGGAGTCGGAGCGGC
AGATCAAGCTGCGGGCGGAGCGGCTCCATGTCCGTGGAGAGGGAATGTACCTTCTGGCTGAGACCAACCTGGAGGATGTG
TTGGAGTCGGTCAACGAGCTGAAGCCAGACGTGCTAATTGTGGACTCCATCCAGACCCTCTACAACGGGGATCTGACCAC
CGCTCCCGGCAGCGTGGGACAGGTAAAGGACTGTACTATGGCGCTGATGCAGTTGGCGAAGGGGCAGGGGATCACCGTCT
TTGTCATCGGACACGTCAATAAGGAAGGGTCTATCGCAGGCCCCAAGGTGCTGGAGCACATGGTGGACTGCGTGCTCTAT
TTCGAAGGTGAGCAGCAGAACTCCTATCGCATTCTGCGTGCGGCAAAGAACCGTTTCGGCGCCACCAATGAGATTGGCGT
CTTTGAGATGGAGGACTCCGGCCTGAGCGAAGTGCCCAATCCATCGGAGATGCTGCTCTCGGGACGGCCTCAGGACACCC
CTGGCACCTGCGTCACCTGCGTCATGGAGGGAGTGCGGCCTGTTTTGGCCGAGGTACAGGCCCTGCTGGCGCCCACCAGC
TTCAATGTACCGCGCAGGACCGCCAACGGCTTCGACTTCAACCGGGCGAATCTGCTGTTGGCTGTTCTGGAAAAGCGGGG
CGGACTGATGGTCAGTTCCTGTGACGCCTATATCAACGTCATCGGCGGCTTGTTTTTGGACGAGCCCGCCGCCGACCTGG
CCATGATCGTCGCACTGGCTTCCAGCTTCCGGGACAAGCCCGTGCCTGGAGATCTGGCCGCCATCGGCGAGGTTGGCCTG
ACCGGAGAGCTGCGCTCAGTCAATGCGTTGGGCCAGCGGCTGAGTGAGGTACGCCGTCTTGGGTTCACAAAGTGCCTGAT
CCCAGCCCGTACCGGCGGAAAGCTGGACGCCCCGGATGGCCTGCAGCTCATTCCGGTCCGCAACATCCGTGAGGCGCTGG
CCGCGCTTTTGTAG

Domains

Predicted by InterproScan.

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

(366-454)

AAA domain (AAA_25)

(72-223)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(7-34)


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

53.173

100

0.532
  radA Streptococcus pneumoniae Rx1

50

99.781

0.499
  radA Streptococcus pneumoniae D39

50

99.781

0.499
  radA Streptococcus pneumoniae R6

50

99.781

0.499
  radA Streptococcus pneumoniae TIGR4

50

99.781

0.499
  radA Streptococcus mitis NCTC 12261

50

99.781

0.499
  radA Streptococcus mitis SK321

50

99.781

0.499

Multiple sequence alignment