Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   GYN04_RS01870 Genome accession   NZ_CP048254
Coordinates   361883..363262 (+) Length   459 a.a.
NCBI ID   WP_003690821.1    Uniprot ID   A0AA44ZGG6
Organism   Neisseria gonorrhoeae strain CT530     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 350458..361791 361883..363262 flank 92


Gene organization within MGE regions


Location: 350458..363262
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GYN04_RS01820 (GYN04_01830) - 350458..351282 (+) 825 WP_003690807.1 N-6 DNA methylase -
  GYN04_RS01825 (GYN04_01835) - 351282..352250 (+) 969 WP_003690809.1 restriction endonuclease subunit S -
  GYN04_RS01830 (GYN04_01840) - 352532..352954 (+) 423 WP_003687769.1 protein Gly1ORF1 -
  GYN04_RS01835 (GYN04_01845) - 352972..353736 (+) 765 WP_003687770.1 uroporphyrinogen-III synthase -
  GYN04_RS01840 (GYN04_01850) - 353748..355082 (+) 1335 WP_003687772.1 uroporphyrinogen-III C-methyltransferase -
  GYN04_RS01845 (GYN04_01855) - 355079..356296 (+) 1218 WP_003687773.1 heme biosynthesis protein HemY -
  GYN04_RS01850 (GYN04_01860) hemE 356371..357435 (+) 1065 WP_003687774.1 uroporphyrinogen decarboxylase -
  GYN04_RS01855 (GYN04_01865) - 357498..359372 (-) 1875 WP_003694912.1 Z1 domain-containing protein -
  GYN04_RS01860 (GYN04_01870) - 359388..360425 (-) 1038 WP_003687776.1 restriction endonuclease PLD domain-containing protein -
  GYN04_RS01865 (GYN04_01875) - 360422..361546 (-) 1125 WP_003687777.1 DNA cytosine methyltransferase -
  GYN04_RS01870 (GYN04_01880) radA 361883..363262 (+) 1380 WP_003690821.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 459 a.a.        Molecular weight: 49506.96 Da        Isoelectric Point: 7.3938

>NTDB_id=420225 GYN04_RS01870 WP_003690821.1 361883..363262(+) (radA) [Neisseria gonorrhoeae strain CT530]
MAKTLKTLYQCTECGGTSPKWQGKCPHCGEWNTLQESFAAPEPKNARFQSWAADASTVQSLSAVTAAEVPRNPTGMGELD
RVLGGGLVDGAVILLGGDPGIGKSTLLLQTIAKMAQSRKVLYVSGEESAQQVALRSQRLELHAEGVNLLAEIRMEAIQAA
LKQHQPEVVVIDSIQTMYSDQITSAPGSVSQVRECAAQLTRMAKQMGIAMILVGHVTKDGAIAGPRVLEHMVDTVLYFEG
DQHSNYRMIRAIKNRFGAANELGVFAMTENGLKGVSNPSAIFLASYRDDTPGSCVLVTQEGSRPLLVEIQALVDDAHGFT
PKRLSVGLEQNRLAMLLAVLNRHGGIACFDQDVFLNAVGGVKIGEPAADLAVILAMLSSFRNRPMPEKTVVFGEIGLSGE
VRPVARGQERLKEAEKLGFKRAIVPKANMPRNAKEFPNLKIHGVSSLQEAIDICRDSRE

Nucleotide


Download         Length: 1380 bp        

>NTDB_id=420225 GYN04_RS01870 WP_003690821.1 361883..363262(+) (radA) [Neisseria gonorrhoeae strain CT530]
ATGGCAAAAACGCTTAAAACCCTTTACCAATGCACCGAATGCGGCGGCACTTCCCCGAAATGGCAGGGCAAATGTCCGCA
TTGCGGCGAGTGGAACACGCTTCAGGAAAGCTTTGCCGCGCCCGAGCCGAAAAACGCCCGATTCCAATCTTGGGCGGCGG
ACGCTTCGACCGTCCAATCCCTCTCCGCCGTTACCGCTGCCGAAGTGCCGCGCAATCCGACCGGTATGGGCGAACTCGAC
CGCGTATTGGGCGGCGGTTTGGTCGATGGCGCGGTCATCCTGCTCGGCGGCGATCCCGGCATCGGCAAATCCACGCTGTT
GTTGCAAACCATCGCCAAAATGGCGCAAAGCCGCAAAGTGCTGTACGTTTCCGGCGAAGAATCCGCCCAACAGGTCGCCC
TGCGCTCGCAACGTTTGGAACTGCACGCCGAAGGCGTAAACCTGCTTGCCGAAATCCGCATGGAAGCGATTCAGGCGGCC
TTGAAACAGCATCAGCCCGAAGTCGTCGTTATCGATTCCATCCAAACCATGTATTCCGACCAAATCACGTCCGCCCCCGG
TTCCGTGTCGCAGGTGCGCGAATGTGCCGCCCAACTGACGCGTATGGCGAAACAAATGGGTATCGCCATGATACTGGTCG
GACACGTTACCAAAGACGGAGCGATTGCCGGCCCGCGCGTGCTGGAACATATGGTCGATACCGTGCTGTATTTCGAGGGC
GACCAACATTCCAACTACCGCATGATACGCGCCATCAAAAACCGTTTCGGCGCGGCAAACGAATTGGGCGTGTTCGCGAT
GACCGAAAACGGTTTGAAAGGCGTATCCAACCCGTCCGCCATCTTCCTCGCCAGCTACCGCGACGACACGCCCGGTTCGT
GCGTTTTGGTTACACAGGAAGGCAGCCGCCCGCTTTTGGTCGAAATTCAGGCATTGGTCGATGACGCGCACGGCTTCACA
CCCAAACGCCTCAGCGTCGGATTGGAACAAAACCGCCTTGCGATGCTGCTTGCCGTGTTAAACCGGCACGGCGGCATCGC
CTGTTTCGATCAGGATGTTTTTTTAAACGCCGTCGGCGGCGTGAAAATCGGCGAACCGGCGGCGGATTTGGCGGTCATCC
TCGCGATGCTTTCCAGCTTCCGCAACCGCCCTATGCCTGAAAAAACCGTGGTCTTCGGTGAAATCGGCCTAAGCGGCGAA
GTCCGCCCCGTCGCACGCGGACAAGAGCGGCTCAAAGAAGCGGAAAAGCTCGGCTTCAAACGCGCCATCGTCCCCAAAGC
CAATATGCCGCGCAATGCCAAAGAGTTTCCGAACCTGAAAATCCACGGCGTTTCAAGTTTGCAGGAAGCCATCGATATTT
GCCGCGACAGCAGGGAATAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(80-220)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(9-36)

Subunit ChlI of Mg-chelatase (ChlI)

(366-428)


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

50.11

99.129

0.497
  radA Streptococcus mitis NCTC 12261

47.02

98.693

0.464
  radA Streptococcus pneumoniae D39

47.124

98.475

0.464
  radA Streptococcus pneumoniae TIGR4

47.124

98.475

0.464
  radA Streptococcus pneumoniae R6

47.124

98.475

0.464
  radA Streptococcus pneumoniae Rx1

47.124

98.475

0.464
  radA Streptococcus mitis SK321

47.007

98.257

0.462

Multiple sequence alignment