Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   amyaer_RS18845 Genome accession   NZ_CP012375
Coordinates   3830412..3831938 (+) Length   508 a.a.
NCBI ID   WP_046663203.1    Uniprot ID   -
Organism   Microcystis aeruginosa NIES-2481     
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 3825068..3859977 3830412..3831938 within 0


Gene organization within MGE regions


Location: 3825068..3859977
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  amyaer_RS18825 (amyaer_3903) - 3825068..3828088 (-) 3021 WP_052734200.1 peptidase domain-containing ABC transporter -
  amyaer_RS23425 - 3828613..3828717 (-) 105 Protein_3609 polyhydroxyalkanoate biosynthesis repressor PhaR -
  amyaer_RS18835 (amyaer_3904) - 3828799..3829440 (-) 642 WP_002781940.1 cofactor assembly of complex C subunit B -
  amyaer_RS18840 (amyaer_3905) - 3829450..3830178 (-) 729 WP_002781934.1 response regulator transcription factor -
  amyaer_RS18845 (amyaer_3906) radA 3830412..3831938 (+) 1527 WP_046663203.1 DNA repair protein RadA Machinery gene
  amyaer_RS18850 petL 3831984..3832085 (+) 102 WP_002791324.1 cytochrome b6-f complex subunit PetL -
  amyaer_RS18855 (amyaer_3907) - 3832158..3832613 (+) 456 WP_046663204.1 DUF29 domain-containing protein -
  amyaer_RS18860 (amyaer_3908) - 3832625..3833080 (+) 456 WP_046663205.1 DUF29 domain-containing protein -
  amyaer_RS18865 (amyaer_3909) - 3833092..3833547 (+) 456 WP_046663206.1 DUF29 domain-containing protein -
  amyaer_RS18870 (amyaer_3910) - 3833559..3834014 (+) 456 WP_046663208.1 DUF29 domain-containing protein -
  amyaer_RS18875 (amyaer_3912) - 3834254..3835942 (-) 1689 WP_046663210.1 solute carrier family 26 protein -
  amyaer_RS18880 (amyaer_3913) - 3836071..3836754 (-) 684 WP_046663211.1 Mo-dependent nitrogenase C-terminal domain-containing protein -
  amyaer_RS18885 (amyaer_3914) - 3836995..3838380 (-) 1386 WP_046663212.1 UDP-glucose/GDP-mannose dehydrogenase family protein -
  amyaer_RS18890 (amyaer_3915) - 3838426..3839352 (-) 927 WP_046663213.1 UDP-glucuronic acid decarboxylase family protein -
  amyaer_RS18895 (amyaer_3916) - 3839554..3839982 (-) 429 WP_002781451.1 type II toxin-antitoxin system VapC family toxin -
  amyaer_RS18900 (amyaer_3917) - 3839979..3840215 (-) 237 WP_046663214.1 hypothetical protein -
  amyaer_RS18905 (amyaer_3918) polA 3840553..3843423 (+) 2871 WP_046663215.1 DNA polymerase I -
  amyaer_RS18910 (amyaer_3919) - 3843428..3843673 (+) 246 WP_046663216.1 hypothetical protein -
  amyaer_RS18915 (amyaer_3920) - 3843710..3843958 (+) 249 WP_080949784.1 heavy-metal-associated domain-containing protein -
  amyaer_RS18920 (amyaer_3921) - 3843982..3844749 (+) 768 Protein_3627 transposase -
  amyaer_RS18925 (amyaer_3922) - 3844861..3845091 (-) 231 WP_046663217.1 type II toxin-antitoxin system CcdA family antitoxin -
  amyaer_RS18930 (amyaer_3924) lepA 3845425..3847236 (+) 1812 WP_002762209.1 translation elongation factor 4 -
  amyaer_RS18935 (amyaer_3925) - 3847297..3848475 (+) 1179 WP_066030136.1 AAA family ATPase -
  amyaer_RS18945 (amyaer_3926) - 3848620..3849333 (+) 714 WP_238999120.1 hypothetical protein -
  amyaer_RS18950 (amyaer_3927) - 3849578..3851392 (+) 1815 WP_066030137.1 ABC transporter ATP-binding protein -
  amyaer_RS18955 (amyaer_3928) - 3851450..3851737 (+) 288 WP_046663852.1 DUF4164 family protein -
  amyaer_RS18960 (amyaer_3929) - 3851956..3852915 (+) 960 WP_066030138.1 HNH endonuclease -
  amyaer_RS18965 (amyaer_3930) dndC 3852939..3854540 (+) 1602 WP_066030139.1 DNA phosphorothioation system sulfurtransferase DndC -
  amyaer_RS18970 (amyaer_3931) - 3854604..3855296 (+) 693 WP_066030140.1 M15 family metallopeptidase -
  amyaer_RS18975 (amyaer_3932) - 3855603..3856007 (-) 405 WP_046663222.1 response regulator -
  amyaer_RS18980 (amyaer_3933) - 3856090..3858747 (+) 2658 WP_066030141.1 DNA topoisomerase (ATP-hydrolyzing) -
  amyaer_RS18985 (amyaer_3934) - 3859294..3859977 (+) 684 WP_046663853.1 YdcF family protein -

Sequence

Protein


Download         Length: 508 a.a.        Molecular weight: 54962.51 Da        Isoelectric Point: 4.9634

>NTDB_id=153949 amyaer_RS18845 WP_046663203.1 3830412..3831938(+) (radA) [Microcystis aeruginosa NIES-2481]
MAKSRTIYICSACGAESPQWLGKCPSCDTYGTLEEQVVAGGNNPAVNRPGWQNSRPNNGKGQRNPQPRISVRFSEITQYE
QERFPSGYGEFDRVLGGGIVPGSLVLIGGDPGIGKSTLLLQVTNQLAQRLPRILYVSAEESGQQIKLRAARLGVGVVPVE
SENNGNGKEKKASESTPELDNHLYVLPETDLEEILRELESLRPQVAVIDSIQTLYFGALTSAPGSVAQVRECTSALMQVA
KRENITLLIVGHVTKEGAIAGPRVLEHLVDTVLYFEGDRYASHRLLRSVKNRFGATHEIGIFEMVDHGLVEVENPSELFL
GNRDEFSPGTATVVACEGTRPIVVELQALVSPTSYASPRRSTTGIEYNRLQQILAVLEKRVGIPLSKLDAYVASAGGLGV
EEPAADLGVAIAIVASFRDRVVDPRTVLIGEVGLGGQVRLVSQMELRLKEAAKLGFKRAIVPRGQVYPEDVGLEIVPVGK
VIEAIVAAIPPQQRFGEDMEDEEGEGQE

Nucleotide


Download         Length: 1527 bp        

>NTDB_id=153949 amyaer_RS18845 WP_046663203.1 3830412..3831938(+) (radA) [Microcystis aeruginosa NIES-2481]
ATGGCGAAATCGCGAACAATATATATCTGTAGTGCTTGTGGGGCGGAATCTCCCCAATGGTTGGGAAAATGCCCCAGTTG
TGACACCTACGGGACTTTAGAAGAACAAGTGGTAGCTGGTGGCAATAATCCGGCGGTAAATCGCCCAGGATGGCAAAATA
GTCGCCCAAATAACGGCAAAGGGCAACGCAACCCCCAACCGCGCATCTCGGTTCGCTTCTCGGAAATTACCCAGTATGAA
CAGGAACGTTTTCCCTCCGGTTACGGGGAATTCGATCGCGTTCTCGGTGGCGGCATTGTCCCCGGTTCTCTTGTACTAAT
CGGTGGCGATCCGGGCATCGGCAAATCGACGCTTTTACTGCAAGTTACCAACCAACTCGCCCAAAGATTACCGCGCATCC
TCTACGTTTCCGCCGAGGAATCGGGACAACAGATTAAACTGCGGGCTGCCCGTTTGGGGGTGGGAGTGGTTCCCGTGGAG
TCGGAAAATAACGGCAATGGCAAGGAAAAAAAAGCCTCTGAATCAACCCCAGAACTCGATAATCATCTCTACGTTCTGCC
AGAAACCGATTTAGAGGAAATTTTGCGAGAATTAGAATCTTTACGCCCACAGGTAGCGGTAATTGATAGTATTCAAACTC
TTTATTTTGGGGCCTTAACTTCCGCACCGGGATCTGTCGCCCAAGTTCGCGAATGTACCTCCGCCTTGATGCAAGTGGCA
AAACGGGAGAATATTACTTTATTAATTGTCGGTCATGTGACTAAAGAAGGGGCGATCGCAGGTCCGCGAGTTTTGGAACA
TTTGGTCGATACGGTGTTATATTTTGAAGGCGATCGCTATGCCTCCCATCGTCTCTTAAGATCCGTGAAAAACCGTTTTG
GGGCCACCCATGAGATCGGTATTTTTGAGATGGTGGATCACGGTTTGGTGGAAGTGGAAAACCCCTCGGAATTGTTTTTA
GGCAATCGCGATGAATTTTCCCCGGGTACGGCGACGGTGGTAGCCTGTGAAGGTACACGCCCGATTGTGGTGGAGTTACA
GGCATTAGTTAGCCCCACCAGCTACGCTTCCCCGCGAAGATCGACCACGGGGATAGAATACAACCGATTACAGCAAATTC
TCGCCGTTTTAGAAAAACGCGTCGGTATTCCTTTATCGAAATTAGATGCCTATGTTGCCTCCGCAGGAGGGTTGGGAGTG
GAAGAACCGGCGGCGGATCTGGGAGTTGCGATCGCTATTGTCGCCAGTTTTCGCGATCGAGTCGTGGATCCGCGCACAGT
TTTAATCGGGGAAGTGGGATTAGGCGGACAAGTGCGCTTGGTGTCGCAAATGGAACTAAGATTAAAGGAAGCGGCGAAAT
TGGGCTTTAAACGGGCGATTGTCCCCAGAGGTCAAGTTTATCCCGAAGATGTGGGCTTAGAAATTGTCCCAGTTGGCAAG
GTAATCGAGGCAATTGTCGCCGCAATTCCCCCCCAGCAGCGCTTTGGGGAAGATATGGAAGACGAGGAAGGGGAAGGGCA
AGAATAA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

KaiC (ATPase)

(85-296)

Subunit ChlI of Mg-chelatase (ChlI)

(401-463)


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

51.129

95.866

0.49
  radA Streptococcus mitis SK321

46.764

94.291

0.441
  radA Streptococcus pneumoniae D39

47.425

91.732

0.435
  radA Streptococcus pneumoniae TIGR4

47.425

91.732

0.435
  radA Streptococcus mitis NCTC 12261

47.425

91.732

0.435
  radA Streptococcus pneumoniae R6

47.425

91.732

0.435
  radA Streptococcus pneumoniae Rx1

47.425

91.732

0.435

Multiple sequence alignment