Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   SJA_RS04930 Genome accession   NC_014006
Coordinates   1058034..1059401 (+) Length   455 a.a.
NCBI ID   WP_013039514.1    Uniprot ID   D4YZV2
Organism   Sphingobium indicum UT26S     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1053034..1064401
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SJA_RS04905 (SJA_C1-10450) - 1053397..1053762 (+) 366 WP_007687112.1 response regulator -
  SJA_RS04910 (SJA_C1-10460) - 1053845..1054921 (+) 1077 WP_013039510.1 chemotaxis protein CheB -
  SJA_RS04915 (SJA_C1-10470) - 1054921..1055826 (+) 906 WP_041385756.1 protein-glutamate O-methyltransferase CheR -
  SJA_RS04920 (SJA_C1-10480) - 1055940..1056638 (+) 699 WP_013039512.1 N-acetylmuramoyl-L-alanine amidase -
  SJA_RS04925 (SJA_C1-10490) - 1057246..1057962 (-) 717 WP_007687125.1 endonuclease/exonuclease/phosphatase family protein -
  SJA_RS04930 (SJA_C1-10500) radA 1058034..1059401 (+) 1368 WP_013039514.1 DNA repair protein RadA Machinery gene
  SJA_RS04935 (SJA_C1-10510) - 1059413..1059928 (+) 516 WP_013039515.1 CvpA family protein -
  SJA_RS04940 (SJA_C1-10520) - 1060020..1060202 (+) 183 WP_007687130.1 general stress protein CsbD -
  SJA_RS04945 (SJA_C1-10530) - 1060322..1061644 (+) 1323 WP_013039516.1 aminopeptidase P family protein -
  SJA_RS04950 (SJA_C1-10550) ffh 1061934..1063385 (+) 1452 WP_013039518.1 signal recognition particle protein -
  SJA_RS04955 (SJA_C1-10560) rpsP 1063431..1063895 (+) 465 WP_013039519.1 30S ribosomal protein S16 -
  SJA_RS04960 (SJA_C1-10570) rimM 1063901..1064380 (+) 480 WP_007687140.1 ribosome maturation factor RimM -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 47801.70 Da        Isoelectric Point: 6.5866

>NTDB_id=36824 SJA_RS04930 WP_013039514.1 1058034..1059401(+) (radA) [Sphingobium indicum UT26S]
MAKAKRKFVCQQCGTVSGRWQGQCDDCGEWNSIVEETAETVFSARHDLHSGGRALMLVGLDDKVDLPPRTTTGIAEFDRA
LGGGIVSGSATLIGGDPGIGKSTLLLQAAARIASAGHSVAYISGEEASDQVRLRAQRLGLGNAPVQLASATSVRDILTTL
GEGAPPALLIIDSIQTMHSDLIEGAPGTVSQVRASSQELIRFAKQRGTALILVGHVTKDGSIAGPRVLEHMVDTVLSFEG
ERSHQYRILRAIKNRFGGTDEIGVFAMVAEGLEEVANPSALFLTHRDENVTGATVFPALEGTRPVLVEIQALVVRLSSGA
TPRRAVVGWDSGRLAMVLAVLEARCGLSFSTCEVYLNVAGGYRLSDPAADLAVAAALMSALSERPVPADVVLFGEIALSG
EIRPVAHAPLRLREAAKLGFNRAFVPATVADGVKGISVSGYRALAQLVDQMLGRG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=36824 SJA_RS04930 WP_013039514.1 1058034..1059401(+) (radA) [Sphingobium indicum UT26S]
ATGGCAAAAGCAAAGCGCAAATTCGTCTGTCAGCAATGCGGCACCGTTTCCGGCCGGTGGCAGGGGCAGTGCGACGATTG
CGGCGAATGGAACAGCATCGTCGAGGAAACGGCGGAGACGGTCTTTTCCGCCCGCCATGACCTGCATAGCGGGGGCAGGG
CGCTGATGCTGGTGGGGCTGGACGACAAGGTGGATCTGCCGCCGCGCACCACGACCGGGATCGCGGAGTTCGACCGGGCG
CTGGGCGGCGGGATCGTTTCCGGTTCGGCCACGCTGATCGGCGGCGATCCGGGCATCGGCAAGTCGACGCTGCTGTTGCA
GGCGGCCGCCCGCATCGCTTCGGCCGGGCACAGCGTCGCCTATATCAGCGGCGAGGAGGCGTCGGACCAGGTCCGGCTGC
GCGCCCAGCGCCTGGGCCTGGGCAATGCGCCGGTGCAGCTTGCCAGCGCCACTTCGGTGCGGGACATATTGACGACTTTG
GGGGAGGGGGCGCCGCCCGCGCTGCTGATCATCGATTCGATCCAGACGATGCACAGCGACCTGATCGAGGGCGCGCCGGG
CACGGTCAGCCAGGTGCGCGCCTCCAGCCAGGAACTGATCCGCTTCGCCAAGCAGCGCGGCACCGCGCTGATCCTGGTCG
GCCATGTGACCAAGGACGGCAGCATCGCCGGTCCCCGCGTGCTGGAGCATATGGTCGACACGGTGTTGAGCTTCGAGGGC
GAGCGCAGCCATCAATATCGTATCCTGCGCGCCATCAAGAACCGCTTTGGCGGCACGGACGAGATCGGGGTGTTTGCCAT
GGTGGCGGAAGGGCTGGAGGAGGTCGCCAATCCTTCCGCGCTGTTCCTCACCCATCGCGACGAGAATGTGACCGGCGCGA
CCGTGTTTCCCGCGCTGGAGGGGACGCGACCGGTGCTGGTGGAGATTCAGGCGCTGGTGGTGAGGCTTTCCAGTGGCGCG
ACCCCCCGCCGCGCCGTGGTGGGGTGGGACAGCGGGCGGCTTGCCATGGTGCTGGCCGTGCTGGAGGCGCGCTGCGGCCT
CAGCTTCTCGACCTGCGAAGTCTATCTGAACGTCGCGGGCGGCTATCGCCTGTCGGACCCGGCAGCCGACCTTGCCGTCG
CCGCCGCGCTGATGTCCGCGCTTTCCGAACGCCCGGTGCCGGCCGATGTCGTCCTCTTCGGGGAAATCGCGCTGTCGGGG
GAAATCCGCCCGGTGGCGCATGCCCCGCTGCGGCTGCGGGAAGCCGCCAAGCTGGGTTTCAACCGCGCCTTCGTCCCCGC
CACCGTGGCGGACGGGGTCAAGGGCATTTCGGTCAGCGGCTATCGCGCCCTTGCGCAACTTGTTGACCAGATGCTTGGGC
GCGGATAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(82-220)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(343-427)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB D4YZV2

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

47.619

100

0.484
  radA Streptococcus mitis NCTC 12261

46.053

100

0.462
  radA Streptococcus pneumoniae Rx1

45.833

100

0.459
  radA Streptococcus pneumoniae D39

45.833

100

0.459
  radA Streptococcus pneumoniae R6

45.833

100

0.459
  radA Streptococcus pneumoniae TIGR4

45.833

100

0.459
  radA Streptococcus mitis SK321

47.235

95.385

0.451

Multiple sequence alignment