Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   YGS_RS08785 Genome accession   NZ_AP018518
Coordinates   1807083..1808450 (-) Length   455 a.a.
NCBI ID   WP_120250607.1    Uniprot ID   -
Organism   Sphingobium sp. YG1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1802083..1813450
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  YGS_RS08760 (YGS_C1P1677) - 1802434..1803051 (+) 618 WP_120250604.1 TetR family transcriptional regulator -
  YGS_RS08765 (YGS_C1P1678) obgE 1803241..1804338 (+) 1098 WP_120252123.1 GTPase ObgE -
  YGS_RS08770 (YGS_C1P1679) proB 1804429..1805559 (+) 1131 WP_120250605.1 glutamate 5-kinase -
  YGS_RS08775 (YGS_C1P1680) - 1805565..1806482 (+) 918 WP_172598772.1 NAD(P)H-binding protein -
  YGS_RS08780 (YGS_C1P1681) - 1806492..1807010 (-) 519 WP_120250606.1 CvpA family protein -
  YGS_RS08785 (YGS_C1P1682) radA 1807083..1808450 (-) 1368 WP_120250607.1 DNA repair protein RadA Machinery gene
  YGS_RS08790 (YGS_C1P1683) - 1808614..1809312 (+) 699 WP_120250608.1 endonuclease/exonuclease/phosphatase family protein -
  YGS_RS08795 (YGS_C1P1684) - 1809364..1811709 (+) 2346 WP_120250609.1 patatin-like protein -
  YGS_RS08800 (YGS_C1P1685) - 1811706..1812212 (+) 507 WP_331852605.1 hypothetical protein -
  YGS_RS08805 (YGS_C1P1686) - 1812374..1812664 (-) 291 WP_120250610.1 4a-hydroxytetrahydrobiopterin dehydratase -
  YGS_RS08810 (YGS_C1P1687) - 1812705..1813112 (+) 408 WP_120250611.1 metallopeptidase family protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 47836.81 Da        Isoelectric Point: 6.6077

>NTDB_id=69821 YGS_RS08785 WP_120250607.1 1807083..1808450(-) (radA) [Sphingobium sp. YG1]
MAKAKRKFVCQQCGTVASRWQGQCEDCGEWNSIVEEAAETVFSSRHDLQNGGRAITLVGLDSTVELPPRTSTGIAEFDRA
LGGGIVHGSATLIGGDPGIGKSTLLLQAAARIAARGLSVAYISGEEAADQVRLRAQRLGLGNAPVQLASATSVRDILTTL
GDGPPPALLIIDSIQTMHSDLIEGAPGTVSQVRASSQELIKFAKQRGTALILVGHVTKDGSIAGPRVLEHMVDTVLAFEG
ERSHQYRILRAVKNRFGGTDEIGVFAMVAEGLEEVANPSALFLTNRDETVTGATVFPALEGTRPVLVEIQALVVRLSSGA
TPRRAVVGWDSGRLAMILAVLEARCGLSFSTCEVYLNVAGGYRLTDPAADLAVAAALISAMSERPVPVDIVLFGEVALSS
EIRPVSHSPLRLREAAKLGFTRAYIPASAADGVKGIAVSGFRTLAQLVDQMLGRG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=69821 YGS_RS08785 WP_120250607.1 1807083..1808450(-) (radA) [Sphingobium sp. YG1]
ATGGCCAAGGCAAAACGCAAATTCGTCTGTCAGCAATGCGGCACCGTCGCCAGCCGGTGGCAGGGCCAGTGCGAGGATTG
CGGCGAATGGAACAGCATCGTCGAAGAAGCGGCGGAAACGGTCTTTTCGTCCCGGCATGACCTGCAAAATGGCGGACGCG
CCATCACGCTGGTCGGCCTGGACAGCACGGTCGAACTGCCTCCGCGCACCAGCACCGGCATCGCCGAATTCGATCGGGCG
CTGGGCGGCGGTATCGTCCATGGTTCAGCGACCCTGATCGGTGGCGATCCGGGCATCGGCAAATCCACGCTGCTGCTGCA
AGCCGCCGCGCGCATCGCCGCGCGGGGCCTTTCCGTCGCCTATATCAGCGGTGAGGAAGCCGCCGATCAGGTCCGCCTGC
GTGCCCAGCGCCTGGGCCTCGGCAACGCGCCGGTACAATTGGCCAGCGCCACCTCCGTCCGCGATATCCTGACGACCTTG
GGGGACGGACCGCCGCCCGCCTTGCTGATCATCGACTCCATCCAGACGATGCATAGCGACCTGATCGAAGGGGCGCCCGG
CACCGTCAGCCAGGTTCGGGCCTCGTCCCAGGAACTCATCAAATTCGCCAAGCAACGCGGCACCGCGCTGATCCTGGTCG
GCCATGTGACGAAAGACGGCAGCATCGCCGGCCCGCGCGTGCTGGAACATATGGTCGACACCGTGCTGGCGTTCGAAGGC
GAACGCAGCCACCAATATCGCATCCTGCGCGCGGTCAAGAATCGCTTCGGCGGCACGGACGAGATCGGCGTCTTCGCCAT
GGTCGCCGAAGGGCTGGAGGAAGTCGCCAACCCCTCCGCCCTGTTCCTCACCAACCGCGACGAGACGGTCACGGGCGCGA
CCGTCTTCCCCGCGCTGGAGGGTACGCGACCGGTCCTGGTCGAAATTCAGGCGCTGGTCGTGCGCCTCTCCAGCGGCGCG
ACCCCCCGCCGCGCCGTGGTCGGCTGGGACAGCGGCCGGCTCGCGATGATCCTTGCCGTGCTGGAGGCACGCTGCGGCCT
CAGCTTCTCGACCTGCGAAGTCTATCTGAACGTCGCGGGCGGCTATCGCCTGACCGATCCTGCCGCCGACCTCGCCGTTG
CCGCTGCGCTTATCTCGGCCATGTCGGAACGGCCGGTGCCGGTCGATATCGTCCTGTTCGGCGAAGTCGCCCTGTCGAGC
GAAATCCGCCCCGTCTCCCATTCGCCCCTGCGCCTGCGCGAAGCGGCGAAACTCGGTTTCACCCGCGCCTATATCCCCGC
GTCGGCGGCGGACGGGGTCAAGGGAATCGCGGTCAGCGGTTTCCGCACCCTCGCGCAGCTTGTTGACCAGATGCTGGGAC
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)

(345-427)


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 Bacillus subtilis subsp. subtilis str. 168

47.939

100

0.486
  radA Streptococcus mitis NCTC 12261

46.154

100

0.462
  radA Streptococcus pneumoniae Rx1

45.934

100

0.459
  radA Streptococcus pneumoniae D39

45.934

100

0.459
  radA Streptococcus pneumoniae R6

45.934

100

0.459
  radA Streptococcus pneumoniae TIGR4

45.934

100

0.459
  radA Streptococcus mitis SK321

45.714

100

0.457

Multiple sequence alignment