Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   S100313_RS08170 Genome accession   NZ_CP021487
Coordinates   1627805..1629175 (-) Length   456 a.a.
NCBI ID   WP_065124638.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain SRCM100313     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1622805..1634175
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  S100313_RS08150 (S100313_01705) - 1622947..1623360 (-) 414 WP_004165556.1 Mini-ribonuclease 3 -
  S100313_RS08155 (S100313_01706) cysS 1623353..1624771 (-) 1419 WP_065124641.1 cysteine--tRNA ligase -
  S100313_RS08160 (S100313_01707) gltX 1624928..1626415 (-) 1488 WP_065124640.1 glutamate--tRNA ligase -
  S100313_RS08165 (S100313_01708) - 1626541..1627689 (-) 1149 WP_065124639.1 PIN/TRAM domain-containing protein -
  S100313_RS08170 (S100313_01709) radA 1627805..1629175 (-) 1371 WP_065124638.1 DNA repair protein RadA Machinery gene
  S100313_RS08175 (S100313_01710) - 1629269..1629804 (-) 536 Protein_1579 dUTP diphosphatase -
  S100313_RS08180 (S100313_01711) - 1629933..1630199 (+) 267 WP_232457134.1 GNAT family N-acetyltransferase -
  S100313_RS08185 (S100313_01712) rpiA 1630266..1630952 (+) 687 WP_002832365.1 ribose-5-phosphate isomerase RpiA -
  S100313_RS08190 (S100313_01713) - 1631001..1632347 (+) 1347 WP_002832366.1 aminopeptidase C -
  S100313_RS08195 (S100313_01714) - 1632693..1633362 (-) 670 Protein_1583 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase -
  S100313_RS08200 (S100313_01715) accA 1633386..1634153 (-) 768 WP_024862951.1 carboxyltransferase subunit alpha -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 50296.80 Da        Isoelectric Point: 7.1016

>NTDB_id=230980 S100313_RS08170 WP_065124638.1 1627805..1629175(-) (radA) [Pediococcus acidilactici strain SRCM100313]
MAKVKTQFVCNNCGYASPKFLGRCPNCGKWNTLVEERMSDPKDERKSRVSFDGKHTQPQLISDVAMHEEPRVKTGMEELN
RVLGGGVVDGSLVLIGGDPGIGKSTLLLQLSGQLAETQRKVLYVSGEESASQIKMRAERLKVNSERFYLYPETDMSSVRA
VIEELHPEYVIIDSVQTMQEPDIESAVGSVSQIREITAELMQIAKTNNITIFIVGHVTKGGAIAGPKILEHMVDTVLYFE
GDLHHTYRILRAVKNRFGSTNELGIFEMREEGLREVANPSEIFLEERLKDASGSAIVVSMEGTRPILVEIQALITPTIFG
NAQRTASGLDRNRVSLIMAVLEKRAKLTLQNQDAYLKAAGGVKLDEPAIDLALAISIVSSFKNQGTRPTDSFVGEIGLTG
EIRRVNRIEQRVAEAQKLGFKRILIPKNNLKGWQPPEGIEVVGVATIADAIRRAFN

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=230980 S100313_RS08170 WP_065124638.1 1627805..1629175(-) (radA) [Pediococcus acidilactici strain SRCM100313]
ATGGCAAAAGTTAAGACCCAGTTTGTATGCAATAATTGCGGATACGCCTCCCCTAAATTTTTAGGACGCTGTCCCAATTG
TGGTAAGTGGAACACTTTAGTTGAAGAACGGATGAGCGATCCAAAGGATGAACGAAAAAGTCGGGTGAGCTTTGACGGCA
AACATACGCAACCACAGCTGATTTCGGACGTCGCGATGCACGAGGAACCCCGGGTAAAAACCGGGATGGAAGAACTTAAC
CGCGTGCTTGGTGGCGGGGTGGTTGACGGCTCCCTAGTCTTAATTGGTGGGGATCCTGGAATCGGAAAATCAACCCTGTT
GTTACAGCTATCAGGACAGTTGGCAGAGACGCAACGCAAGGTACTTTACGTTTCTGGTGAAGAAAGTGCTTCCCAGATTA
AGATGCGTGCCGAACGATTGAAAGTCAATAGTGAACGCTTCTATTTGTATCCAGAGACCGATATGTCTAGCGTGCGGGCG
GTGATTGAGGAGTTACACCCCGAATACGTGATCATTGATTCGGTTCAGACCATGCAGGAACCGGATATTGAATCGGCGGT
GGGGAGCGTTTCTCAAATTCGAGAAATTACCGCAGAATTAATGCAAATCGCGAAAACCAATAACATTACCATCTTCATCG
TTGGTCACGTGACCAAGGGCGGCGCAATTGCGGGGCCGAAGATTTTGGAACACATGGTGGATACGGTGCTTTACTTTGAA
GGTGATCTGCACCACACTTACCGGATCCTGCGAGCGGTGAAGAACCGGTTTGGTTCCACGAACGAATTAGGAATCTTTGA
GATGCGCGAAGAAGGGTTACGCGAGGTGGCTAACCCGTCAGAAATTTTCTTAGAAGAGCGTTTAAAAGATGCTTCGGGAT
CGGCAATTGTAGTTTCAATGGAAGGAACTCGGCCGATTTTAGTTGAAATACAAGCCTTGATTACGCCCACCATCTTCGGC
AATGCGCAGCGCACGGCGAGCGGGTTGGACCGCAACCGGGTTTCGCTGATCATGGCGGTGCTCGAAAAACGGGCAAAGCT
TACTTTGCAAAACCAAGACGCCTATTTAAAGGCGGCGGGCGGCGTTAAGCTTGACGAACCCGCAATTGACTTAGCGTTGG
CGATTAGTATTGTTTCAAGTTTTAAAAATCAGGGAACCCGGCCGACCGATAGTTTTGTTGGTGAAATCGGCTTAACTGGT
GAAATTCGGCGGGTTAACCGAATTGAACAACGGGTCGCTGAAGCACAAAAGCTTGGTTTTAAGCGGATTTTGATTCCGAA
GAATAATTTGAAGGGGTGGCAGCCCCCCGAAGGAATTGAAGTTGTAGGGGTAGCTACGATTGCCGACGCGATTCGGCGGG
CATTTAATTAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(72-221)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

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 mitis SK321

67.033

99.781

0.669
  radA Streptococcus mitis NCTC 12261

66.813

99.781

0.667
  radA Streptococcus pneumoniae Rx1

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