Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   PSL001_RS06470 Genome accession   NZ_CP039378
Coordinates   1280100..1281470 (+) Length   456 a.a.
NCBI ID   WP_002833248.1    Uniprot ID   A0AAU7NM61
Organism   Pediococcus pentosaceus strain SL001     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1275100..1286470
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSL001_RS06440 (PSL001_06440) - 1275188..1276375 (+) 1188 WP_146419578.1 MFS transporter -
  PSL001_RS06445 (PSL001_06445) - 1276439..1276819 (+) 381 WP_060743857.1 helix-turn-helix domain-containing protein -
  PSL001_RS06450 (PSL001_06450) - 1276895..1278241 (-) 1347 WP_023440693.1 C1 family peptidase -
  PSL001_RS06455 (PSL001_06455) rpiA 1278311..1278997 (-) 687 WP_002833245.1 ribose-5-phosphate isomerase RpiA -
  PSL001_RS06460 (PSL001_06460) - 1279001..1279330 (-) 330 WP_060743855.1 GNAT family N-acetyltransferase -
  PSL001_RS06465 (PSL001_06465) - 1279467..1280000 (+) 534 WP_002833247.1 dUTP diphosphatase -
  PSL001_RS06470 (PSL001_06470) radA 1280100..1281470 (+) 1371 WP_002833248.1 DNA repair protein RadA Machinery gene
  PSL001_RS06475 (PSL001_06475) - 1281488..1282618 (+) 1131 WP_146419579.1 PIN/TRAM domain-containing protein -
  PSL001_RS06480 (PSL001_06480) gltX 1282688..1284175 (+) 1488 WP_146419580.1 glutamate--tRNA ligase -
  PSL001_RS06485 (PSL001_06485) cysS 1284356..1285768 (+) 1413 WP_060743853.1 cysteine--tRNA ligase -
  PSL001_RS06490 (PSL001_06490) - 1285761..1286174 (+) 414 WP_023440688.1 Mini-ribonuclease 3 -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 50360.80 Da        Isoelectric Point: 6.7620

>NTDB_id=358294 PSL001_RS06470 WP_002833248.1 1280100..1281470(+) (radA) [Pediococcus pentosaceus strain SL001]
MAKVKTQFLCSECGYVSPKFLGRCPNCGRWNTLVEERISEPKNERKSRVSFEGKSSKPQLISEVKMHEEPRVKTGMEELN
RVLGGGVVDGSLVLIGGDPGIGKSTLLLQLSGQLAATDRDVLYVSGEESASQIKMRAERLQVNSERFYLYPETDMSNIRA
VIEELHPQYVIIDSVQTMQEPDIDSAVGSVSQIREITAELMQIAKTNNITIFIVGHVTKGGAIAGPKILEHMVDTVLYFE
GDLHHTYRILRAVKNRFGSTNELGIFEMREEGLREVANPSEIFLEERLQDANGSAIVVSMEGTRPILVEIQALITPTIFG
NAQRTASGLDRNRVSLIMAVLEKRANLTLQNQDAYLKAAGGVKLDEPAIDLAIAMSIVSSFKNQGTRPTDSFVGEIGLTG
EIRRVNRIEQRVAEAQKLGFQRILIPKNNLKGWNPPKGIEVVGVTTITDAIRKAFN

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=358294 PSL001_RS06470 WP_002833248.1 1280100..1281470(+) (radA) [Pediococcus pentosaceus strain SL001]
TTGGCTAAAGTAAAAACACAGTTTTTGTGTTCAGAATGTGGGTATGTTTCACCTAAATTCTTAGGGCGTTGTCCTAATTG
TGGAAGATGGAACACTCTGGTTGAAGAGCGGATTAGTGAACCTAAAAACGAACGTAAGAGTCGCGTTAGTTTTGAGGGTA
AAAGTAGTAAACCACAATTAATTTCAGAAGTTAAAATGCACGAAGAACCGCGAGTTAAAACAGGGATGGAAGAACTGAAC
CGAGTGCTCGGTGGTGGTGTAGTAGATGGCTCACTAGTTCTAATTGGTGGAGATCCAGGAATTGGAAAGTCGACCCTATT
ATTACAACTATCTGGGCAATTAGCTGCTACTGATCGAGATGTTTTATACGTGTCTGGGGAAGAAAGTGCTTCACAGATCA
AGATGCGCGCCGAACGTTTACAGGTTAACAGTGAACGTTTTTACTTATACCCTGAAACTGATATGTCCAATATTCGTGCG
GTCATTGAGGAACTACATCCTCAGTATGTAATTATTGATTCTGTTCAAACCATGCAAGAGCCCGACATTGATTCAGCAGT
AGGTAGTGTATCGCAAATTCGAGAAATTACAGCTGAATTAATGCAAATTGCTAAAACAAATAACATTACTATTTTTATTG
TTGGTCATGTAACTAAAGGGGGAGCCATTGCTGGTCCTAAAATTTTAGAACATATGGTTGATACAGTACTTTATTTTGAA
GGCGATTTGCATCATACGTATCGAATTTTACGAGCGGTTAAAAATCGATTTGGTTCTACGAATGAATTGGGAATTTTCGA
AATGCGAGAGGAAGGGCTTCGAGAAGTAGCCAATCCTTCGGAAATCTTTTTAGAGGAACGCCTGCAAGATGCTAACGGTT
CCGCTATTGTGGTTTCGATGGAAGGTACTCGACCAATTTTGGTTGAAATTCAAGCTTTGATTACGCCTACCATTTTTGGG
AATGCTCAGCGGACTGCTAGCGGGTTGGATCGTAACCGAGTCTCATTAATTATGGCAGTTTTAGAAAAAAGGGCTAATTT
AACGTTGCAGAACCAAGACGCCTACTTAAAGGCTGCTGGCGGAGTGAAATTGGATGAGCCAGCAATTGATTTGGCAATTG
CGATGAGTATCGTATCGAGTTTTAAGAATCAAGGGACGAGACCGACTGATAGCTTTGTTGGCGAAATTGGTTTAACTGGT
GAAATCCGACGGGTTAATCGAATTGAACAACGGGTTGCCGAAGCTCAAAAACTAGGTTTTCAACGAATTTTAATTCCTAA
AAATAATTTGAAGGGTTGGAATCCACCTAAAGGGATTGAAGTAGTAGGAGTAACAACGATTACGGACGCAATTCGGAAGG
CGTTTAATTAG

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(72-221)

Subunit ChlI of Mg-chelatase (ChlI)

(362-429)


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 Streptococcus pneumoniae Rx1

66.813

99.781

0.667
  radA Streptococcus mitis NCTC 12261

66.813

99.781

0.667
  radA Streptococcus mitis SK321

66.813

99.781

0.667
  radA Streptococcus pneumoniae TIGR4

66.813

99.781

0.667
  radA Streptococcus pneumoniae D39

66.813

99.781

0.667
  radA Streptococcus pneumoniae R6

66.813

99.781

0.667
  radA Bacillus subtilis subsp. subtilis str. 168

65.132

100

0.651

Multiple sequence alignment