Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   ACFGDV_RS12005 Genome accession   NZ_CP176528
Coordinates   2548224..2549594 (+) Length   456 a.a.
NCBI ID   WP_136419549.1    Uniprot ID   -
Organism   Noviherbaspirillum sp. ST 5-3     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2543224..2554594
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACFGDV_RS11980 rimI 2543442..2543933 (+) 492 WP_247869739.1 ribosomal protein S18-alanine N-acetyltransferase -
  ACFGDV_RS11985 - 2543930..2544733 (+) 804 WP_136419552.1 uracil-DNA glycosylase family protein -
  ACFGDV_RS11990 - 2544717..2545682 (+) 966 WP_136419551.1 DUF1853 family protein -
  ACFGDV_RS11995 lplT 2545714..2546976 (-) 1263 WP_136419605.1 lysophospholipid transporter LplT -
  ACFGDV_RS12000 alr 2547134..2548210 (+) 1077 WP_136419550.1 alanine racemase -
  ACFGDV_RS12005 radA 2548224..2549594 (+) 1371 WP_136419549.1 DNA repair protein RadA Machinery gene
  ACFGDV_RS12010 hpnE 2549598..2550911 (-) 1314 WP_136419548.1 hydroxysqualene dehydroxylase HpnE -
  ACFGDV_RS12015 hpnD 2550939..2551772 (-) 834 WP_136419547.1 presqualene diphosphate synthase HpnD -
  ACFGDV_RS12020 hpnC 2551809..2552651 (-) 843 WP_136419546.1 squalene synthase HpnC -
  ACFGDV_RS12025 - 2552795..2553991 (+) 1197 WP_409482653.1 efflux RND transporter periplasmic adaptor subunit -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 48544.85 Da        Isoelectric Point: 7.7383

>NTDB_id=1080720 ACFGDV_RS12005 WP_136419549.1 2548224..2549594(+) (radA) [Noviherbaspirillum sp. ST 5-3]
MAKQKTNYTCTECGGVSSKWAGQCASCGQWNTLVETVIEAAGNRFSGQHQGLAQTSPVLSLADIEAIDVPRFGTGIEEFD
RVLGGGLVAGGVVLIGGDPGIGKSTLLLQALANMSRIKKTLYVSGEESGSQIALRAKRLAVDAKELQLQAEIQLEKILNT
LADHKPQVAVIDSIQTIYSDALTSAPGSVAQVRECAAQLTRVAKQSGITIIMVGHVTKEGALAGPRVLEHIVDTVLYFEG
DTHSSFRLVRAFKNRFGAVNELGVFAMTEKGLKGVSNPSALFLSQHDNQVPGSCVMVTQEGTRPLLVEIQALVDTSHVPN
ARRLSVGLEQNRLAMLLAVLHRHAAVAAFDQDVFINAVGGVKITEPAADLAVLLAIHSSMRNKPLPRGLVAFGEVGLAGE
IRPAPRGQERLREAAKLGFSIALIPKANAPKQKIEGLTVIGVERIDEALNRAREQD

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=1080720 ACFGDV_RS12005 WP_136419549.1 2548224..2549594(+) (radA) [Noviherbaspirillum sp. ST 5-3]
ATGGCAAAACAGAAAACCAATTACACCTGTACCGAGTGCGGCGGTGTTTCCAGCAAATGGGCAGGGCAGTGCGCATCGTG
CGGCCAATGGAACACGCTGGTCGAGACCGTCATTGAGGCGGCCGGAAATCGTTTCTCGGGTCAGCATCAAGGTTTGGCGC
AGACTTCGCCGGTGCTCAGCCTCGCCGATATCGAGGCAATCGACGTTCCGCGCTTTGGCACAGGGATCGAAGAGTTCGAC
CGCGTACTTGGTGGTGGACTGGTGGCCGGCGGTGTGGTTCTGATCGGCGGCGATCCCGGCATTGGCAAATCGACATTACT
GCTGCAGGCATTGGCCAATATGTCGCGTATCAAGAAGACCTTATATGTCAGCGGCGAGGAATCCGGTTCGCAGATTGCAC
TGCGTGCAAAACGCCTCGCCGTAGATGCGAAAGAATTGCAATTGCAGGCGGAAATCCAGCTCGAGAAAATCCTCAATACG
CTGGCTGACCACAAGCCGCAGGTTGCGGTAATCGACTCGATCCAGACCATCTATTCCGATGCATTGACATCCGCGCCCGG
TTCGGTGGCGCAGGTGCGCGAATGCGCCGCGCAATTGACCCGCGTGGCGAAGCAATCCGGCATCACCATCATCATGGTCG
GCCACGTGACGAAAGAGGGGGCGCTGGCCGGACCGCGCGTGCTGGAGCATATTGTCGATACCGTACTGTATTTTGAAGGT
GACACACACTCCAGCTTCCGTCTCGTGCGCGCTTTCAAGAACCGTTTCGGTGCGGTCAACGAACTGGGCGTGTTCGCAAT
GACCGAAAAAGGCCTGAAGGGCGTGTCCAATCCATCAGCCTTGTTCTTGTCGCAACACGACAATCAGGTTCCCGGGTCTT
GCGTGATGGTGACGCAGGAAGGAACGCGTCCCTTGCTGGTGGAAATCCAGGCGCTGGTGGATACCTCGCACGTGCCCAAT
GCGCGCAGGCTGTCCGTCGGCCTGGAGCAGAATCGTCTGGCAATGTTGCTTGCAGTGCTGCATCGACATGCCGCCGTCGC
AGCCTTCGATCAGGACGTGTTCATCAATGCGGTCGGGGGCGTGAAAATCACGGAGCCGGCGGCGGATCTCGCCGTTTTGC
TTGCCATTCATTCATCCATGCGCAACAAGCCATTACCACGCGGCCTGGTCGCTTTTGGCGAAGTAGGACTTGCGGGGGAA
ATTCGCCCAGCGCCGCGCGGACAGGAGCGCTTGCGCGAAGCCGCCAAGCTCGGCTTTTCGATCGCATTGATTCCGAAGGC
TAACGCACCCAAGCAAAAGATCGAAGGACTTACCGTTATCGGCGTCGAGCGCATCGATGAAGCGCTTAATCGCGCCCGTG
AACAGGACTGA

Domains

Predicted by InterproScan.

Lon protease (S16) C-terminal proteolytic domain (Lon_C)

(359-452)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(72-220)


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

49.67

99.781

0.496
  radA Streptococcus pneumoniae Rx1

47.921

100

0.48
  radA Streptococcus pneumoniae D39

47.921

100

0.48
  radA Streptococcus pneumoniae R6

47.921

100

0.48
  radA Streptococcus pneumoniae TIGR4

47.921

100

0.48
  radA Streptococcus mitis NCTC 12261

47.912

99.781

0.478
  radA Streptococcus mitis SK321

47.912

99.781

0.478

Multiple sequence alignment