Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   SPYCA_RS09910 Genome accession   NZ_AP017898
Coordinates   2103891..2105252 (-) Length   453 a.a.
NCBI ID   WP_120220038.1    Uniprot ID   A0A2Z5UMW0
Organism   Sphingopyxis sp. FD7     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2098891..2110252
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPYCA_RS09885 (SPYCA_1977) - 2099210..2099785 (+) 576 WP_120220028.1 shikimate kinase -
  SPYCA_RS09890 (SPYCA_1978) aroB 2099773..2100891 (+) 1119 WP_120220030.1 3-dehydroquinate synthase -
  SPYCA_RS09895 (SPYCA_1979) - 2101021..2102922 (-) 1902 WP_120220033.1 cation:proton antiporter -
  SPYCA_RS09900 (SPYCA_1980) - 2102919..2103347 (-) 429 WP_120220034.1 iron-sulfur cluster assembly scaffold protein -
  SPYCA_RS09905 (SPYCA_1981) - 2103344..2103880 (-) 537 WP_120220036.1 CvpA family protein -
  SPYCA_RS09910 (SPYCA_1982) radA 2103891..2105252 (-) 1362 WP_120220038.1 DNA repair protein RadA Machinery gene
  SPYCA_RS09915 (SPYCA_1983) fsa 2105463..2106113 (+) 651 WP_120220040.1 fructose-6-phosphate aldolase -
  SPYCA_RS09920 (SPYCA_1984) - 2106297..2107091 (+) 795 WP_120220042.1 crotonase/enoyl-CoA hydratase family protein -
  SPYCA_RS09925 (SPYCA_1985) - 2107093..2108592 (+) 1500 WP_120220044.1 acetyl-CoA acetyltransferase -
  SPYCA_RS09930 (SPYCA_1986) - 2108725..2110224 (-) 1500 WP_120220047.1 aldehyde dehydrogenase family protein -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 47520.29 Da        Isoelectric Point: 6.3976

>NTDB_id=68443 SPYCA_RS09910 WP_120220038.1 2103891..2105252(-) (radA) [Sphingopyxis sp. FD7]
MAKAKRQYVCQNCGGVSYRWQGQCADCGEWNTLVEEAAETVFSAKHDLSKGGRTLALETLDAASSMPERMLCGIAEFDRA
LGGGFVAGSATLIGGDPGIGKSTLLLQAAGRLAKAGRSVVYISGEEAAAQVRLRAQRLGLGDAPVALASATSVRDILATL
DRQTADFVVIDSIQTMHSDLIDSAPGTVSQVRASAQELIRHAKDSGAAIVLVGHVTKDGTIAGPRVLEHMVDTVLAFEGE
RSHQYRILRAVKNRFGGTDEIGVFAMGEEGLGEVSNPSSLFLTDRSRDVPGSVVFPALEGTRPVLVEVQALTVRLASGAT
PRRAVVGWDSGRLAMVLAVLEARCGLQMGAAEVYLNIAGGYRLTDPAADLAVAAALISAFSERPVPADAIVFGELSLSGE
VRPVAHDALRLREAAKLGFSSGWGPKGMKRVNGIGVTGFARVGELVDLMLGRD

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=68443 SPYCA_RS09910 WP_120220038.1 2103891..2105252(-) (radA) [Sphingopyxis sp. FD7]
ATGGCCAAAGCAAAGCGTCAATATGTTTGCCAGAATTGCGGGGGCGTATCTTACCGTTGGCAGGGGCAGTGCGCCGATTG
CGGTGAGTGGAACACGCTGGTCGAAGAGGCCGCCGAAACCGTCTTTTCGGCCAAGCACGACCTGAGCAAAGGCGGACGCA
CGCTCGCGCTCGAAACGCTCGATGCCGCGAGCTCGATGCCCGAACGGATGCTGTGCGGGATCGCCGAGTTCGACCGCGCG
CTCGGCGGCGGCTTCGTTGCGGGTTCGGCGACGCTGATCGGCGGCGATCCGGGAATCGGCAAATCGACCTTGCTGCTCCA
GGCCGCCGGAAGGCTCGCCAAGGCGGGCAGGTCGGTCGTCTATATCAGCGGCGAAGAGGCCGCGGCGCAGGTGCGGCTGC
GCGCGCAGCGACTGGGGCTGGGCGATGCGCCTGTGGCGCTCGCGAGCGCGACGTCGGTGCGCGACATTCTCGCGACGCTC
GACCGCCAGACCGCCGATTTCGTCGTGATCGATTCGATCCAGACGATGCACAGCGACCTGATCGACAGCGCGCCGGGGAC
GGTGAGCCAGGTACGCGCGAGCGCGCAGGAATTGATCCGCCATGCCAAGGATAGCGGCGCGGCGATCGTGCTCGTCGGCC
ATGTGACCAAGGACGGGACGATCGCCGGGCCGCGCGTGCTCGAACATATGGTCGACACGGTGCTGGCGTTCGAGGGCGAG
CGCAGCCACCAATATCGCATCCTGCGCGCGGTGAAGAACCGCTTTGGCGGCACCGACGAGATCGGCGTGTTCGCGATGGG
CGAGGAGGGGCTGGGCGAGGTATCGAATCCGTCGAGCCTGTTCCTGACCGACCGCAGCCGCGACGTGCCGGGATCGGTCG
TGTTCCCCGCATTGGAAGGCACGCGCCCGGTGCTGGTCGAGGTGCAGGCGCTGACCGTGCGCCTCGCGAGCGGCGCGACT
CCCCGCAGGGCCGTCGTCGGCTGGGACAGCGGGCGGCTCGCGATGGTCCTCGCGGTGCTGGAGGCGCGCTGCGGGCTGCA
AATGGGGGCGGCCGAAGTCTATCTCAACATCGCGGGCGGCTACCGGCTCACCGATCCCGCCGCCGATCTCGCCGTTGCTG
CCGCGCTGATCTCGGCGTTCAGCGAGCGACCGGTGCCCGCCGATGCGATCGTCTTCGGCGAATTGTCGCTTTCGGGCGAG
GTGCGCCCTGTCGCGCACGACGCGCTGCGGCTTCGCGAAGCGGCAAAGCTTGGATTCTCAAGCGGCTGGGGGCCGAAGGG
GATGAAGCGCGTGAACGGAATCGGCGTCACGGGCTTTGCGCGGGTCGGCGAACTCGTTGACCTGATGCTCGGGCGCGACT
AG

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(342-419)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(81-219)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A2Z5UMW0

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

47.505

100

0.483
  radA Streptococcus pneumoniae Rx1

46.993

99.117

0.466
  radA Streptococcus pneumoniae D39

46.993

99.117

0.466
  radA Streptococcus pneumoniae R6

46.993

99.117

0.466
  radA Streptococcus pneumoniae TIGR4

46.993

99.117

0.466
  radA Streptococcus mitis NCTC 12261

46.771

99.117

0.464
  radA Streptococcus mitis SK321

48.009

94.26

0.453

Multiple sequence alignment