Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   R2APBS1_RS05780 Genome accession   NC_020541
Coordinates   1291384..1292769 (+) Length   461 a.a.
NCBI ID   WP_015447202.1    Uniprot ID   M4NCD2
Organism   Rhodanobacter denitrificans     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1286384..1297769
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R2APBS1_RS05755 (R2APBS1_1176) - 1287710..1288036 (+) 327 WP_007510487.1 iron-sulfur cluster assembly accessory protein -
  R2APBS1_RS05760 (R2APBS1_1177) rpsF 1288319..1288741 (+) 423 WP_007510489.1 30S ribosomal protein S6 -
  R2APBS1_RS05765 (R2APBS1_1178) rpsR 1288756..1288986 (+) 231 WP_007081973.1 30S ribosomal protein S18 -
  R2APBS1_RS05770 (R2APBS1_1179) rplI 1289138..1289587 (+) 450 WP_015447200.1 50S ribosomal protein L9 -
  R2APBS1_RS05775 (R2APBS1_1180) - 1289876..1291270 (+) 1395 WP_015447201.1 replicative DNA helicase -
  R2APBS1_RS05780 (R2APBS1_1181) radA 1291384..1292769 (+) 1386 WP_015447202.1 DNA repair protein RadA Machinery gene
  R2APBS1_RS05785 (R2APBS1_1182) ccsA 1292779..1293576 (-) 798 WP_015447203.1 cytochrome c biogenesis protein CcsA -
  R2APBS1_RS05790 (R2APBS1_1183) ffh 1293673..1295052 (+) 1380 WP_015447204.1 signal recognition particle protein -
  R2APBS1_RS05795 (R2APBS1_1184) rpsP 1295186..1295440 (+) 255 WP_015447205.1 30S ribosomal protein S16 -
  R2APBS1_RS05800 (R2APBS1_1185) rimM 1295442..1295975 (+) 534 WP_015447206.1 ribosome maturation factor RimM -
  R2APBS1_RS05805 (R2APBS1_1186) trmD 1296011..1296784 (+) 774 WP_007510515.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  R2APBS1_RS05810 (R2APBS1_1187) rplS 1296829..1297221 (+) 393 WP_007510517.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 48571.93 Da        Isoelectric Point: 7.4621

>NTDB_id=57133 R2APBS1_RS05780 WP_015447202.1 1291384..1292769(+) (radA) [Rhodanobacter denitrificans]
MAKAKTAYVCTDCGAEHPKWQGSCAECGAWNTLSEIVLAPASAAKPSVGAQRSSYAGAAAGAPRITPLTAVALTTEARTL
TGIGELDRVLGGGLVEGSVVLIGGDPGIGKSTLLLQMLGMLGAHLSSVYVTGEESLAQVAARAQRLGLPLEPLQALAETC
MERILEQAAAMRPRVLVIDSIQTIWTELLTAAPGSVSQVRESAAKLTRYAKETGTSVFLVGHVTKEGGIAGPRVLEHMVD
AVLYFEGESGSRFRVLRAFKNRFGAVNELGVFAMSDKGLREVPNPSAIFLSAHAGPTSGSAVMVTREGTRPLLVEVQALV
DQSSLGNPRRVTLGLEQNRLAMLLAVLHRHGGVAAYDQDVFVNVVGGIRVQETAADLPVLLAVLSSLRDRPLPEHTIAFG
EVGLSGEIRPVPNGEERLKEAAHHGFRRAIVPKANAPKKGRVGEMEVVGVERLSEAIDACR

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=57133 R2APBS1_RS05780 WP_015447202.1 1291384..1292769(+) (radA) [Rhodanobacter denitrificans]
ATGGCCAAAGCCAAGACCGCCTACGTCTGCACCGATTGCGGCGCCGAACACCCGAAGTGGCAAGGTTCATGTGCCGAGTG
CGGCGCCTGGAACACGCTCAGCGAGATCGTGCTGGCGCCGGCCTCGGCGGCGAAGCCGTCGGTGGGCGCGCAGCGCTCCA
GCTACGCCGGTGCCGCCGCCGGCGCGCCGCGCATCACGCCACTGACCGCGGTGGCGCTGACCACCGAGGCGCGCACGCTG
ACCGGCATTGGCGAACTGGACCGCGTGCTGGGGGGCGGCCTGGTCGAGGGTTCGGTGGTGTTGATCGGCGGCGACCCCGG
CATTGGCAAGTCCACCCTGCTGCTGCAGATGCTGGGCATGCTGGGCGCGCATCTGTCCAGCGTCTATGTCACTGGCGAGG
AATCGCTGGCGCAGGTGGCCGCACGCGCGCAGCGCCTGGGCCTGCCGTTGGAGCCGCTGCAGGCGCTGGCCGAAACCTGC
ATGGAGCGCATCCTCGAACAGGCCGCGGCGATGCGCCCGCGGGTGCTGGTGATCGACTCGATCCAGACCATCTGGACCGA
ATTGCTCACCGCCGCGCCCGGTTCGGTGTCGCAGGTGCGCGAGTCGGCGGCCAAGCTCACCCGCTATGCCAAGGAGACCG
GCACCTCGGTGTTCCTGGTCGGCCACGTCACCAAGGAAGGCGGCATCGCCGGCCCGCGCGTGCTCGAGCACATGGTCGAC
GCAGTGCTGTATTTCGAGGGCGAATCCGGTTCGCGCTTCCGCGTGCTGCGCGCGTTCAAGAACCGCTTCGGCGCGGTCAA
CGAACTGGGCGTGTTCGCGATGAGCGACAAGGGCCTGCGCGAAGTGCCGAACCCGTCGGCGATCTTCCTGTCCGCGCACG
CGGGGCCGACTTCGGGCAGCGCCGTGATGGTCACCCGCGAGGGCACCCGGCCGCTGCTGGTGGAGGTACAGGCGCTGGTC
GATCAGTCCTCGCTGGGCAACCCGCGCCGGGTCACCCTGGGGCTGGAGCAGAACCGGCTGGCGATGTTGCTGGCCGTGCT
GCACCGGCATGGCGGCGTGGCGGCCTACGACCAGGACGTGTTCGTCAACGTGGTCGGCGGCATCCGCGTGCAGGAAACCG
CCGCCGACCTGCCGGTGCTGCTGGCGGTACTGTCGTCCCTGCGCGACCGGCCACTGCCGGAGCACACCATCGCCTTCGGC
GAAGTCGGCCTGTCCGGCGAGATCCGCCCGGTGCCGAACGGCGAGGAGCGCCTGAAGGAAGCTGCCCATCACGGCTTCCG
CCGCGCCATCGTGCCGAAGGCGAACGCGCCGAAGAAGGGTCGCGTCGGCGAGATGGAGGTGGTCGGGGTGGAGCGCTTGA
GCGAGGCGATCGACGCCTGCCGCTGA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(85-227)

Subunit ChlI of Mg-chelatase (ChlI)

(351-435)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB M4NCD2

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

48.472

99.349

0.482
  radA Streptococcus mitis NCTC 12261

44.639

99.132

0.443
  radA Streptococcus pneumoniae Rx1

44.639

99.132

0.443
  radA Streptococcus pneumoniae D39

44.639

99.132

0.443
  radA Streptococcus pneumoniae R6

44.639

99.132

0.443
  radA Streptococcus pneumoniae TIGR4

44.639

99.132

0.443
  radA Streptococcus mitis SK321

44.639

99.132

0.443

Multiple sequence alignment