Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   IB64_RS06335 Genome accession   NZ_CP037440
Coordinates   1528992..1530359 (-) Length   455 a.a.
NCBI ID   WP_005810649.1    Uniprot ID   -
Organism   Bacteroides fragilis strain DCMOUH0085B     
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 1522439..1545362 1528992..1530359 within 0


Gene organization within MGE regions


Location: 1522439..1545362
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IB64_RS06305 (IB64_006305) - 1522439..1523413 (+) 975 WP_005810656.1 zinc ribbon domain-containing protein -
  IB64_RS06315 (IB64_006315) - 1523679..1526081 (-) 2403 WP_005778641.1 TonB-dependent receptor -
  IB64_RS06320 (IB64_006320) - 1526339..1526938 (-) 600 WP_032531771.1 response regulator transcription factor -
  IB64_RS06325 (IB64_006325) - 1526947..1528536 (-) 1590 WP_032538157.1 NAD(P)/FAD-dependent oxidoreductase -
  IB64_RS06330 (IB64_006330) - 1528578..1528952 (-) 375 WP_032540283.1 GxxExxY protein -
  IB64_RS06335 (IB64_006335) radA 1528992..1530359 (-) 1368 WP_005810649.1 DNA repair protein RadA Machinery gene
  IB64_RS23840 - 1530828..1530965 (+) 138 WP_175413940.1 hypothetical protein -
  IB64_RS06340 (IB64_006340) - 1531183..1531590 (+) 408 WP_032540282.1 BT0820 family HAD-type phosphatase -
  IB64_RS06345 (IB64_006345) - 1531685..1533979 (-) 2295 WP_022011551.1 tyrosine-protein kinase -
  IB64_RS06350 (IB64_006350) - 1533998..1534951 (-) 954 WP_080715582.1 polysaccharide biosynthesis/export family protein -
  IB64_RS06355 (IB64_006355) thrA 1535618..1538053 (+) 2436 WP_005823094.1 bifunctional aspartate kinase/homoserine dehydrogenase I -
  IB64_RS06360 (IB64_006360) - 1538065..1539276 (+) 1212 WP_032540281.1 cofactor-independent phosphoglycerate mutase -
  IB64_RS06365 (IB64_006365) thrC 1539426..1540727 (+) 1302 WP_032540279.1 threonine synthase -
  IB64_RS06370 (IB64_006370) - 1541056..1542003 (+) 948 WP_032531769.1 DMT family transporter -
  IB64_RS06375 (IB64_006375) - 1541957..1542580 (-) 624 WP_005810634.1 thiamine diphosphokinase -
  IB64_RS06380 (IB64_006380) pnuC 1542567..1543139 (-) 573 WP_005778616.1 nicotinamide riboside transporter PnuC -
  IB64_RS06385 (IB64_006385) - 1543143..1545362 (-) 2220 WP_032536851.1 TonB-dependent receptor -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 50199.95 Da        Isoelectric Point: 6.1360

>NTDB_id=349754 IB64_RS06335 WP_005810649.1 1528992..1530359(-) (radA) [Bacteroides fragilis strain DCMOUH0085B]
MAKEKTVYVCSNCGQESPKWVGKCPSCGEWNTYVEEIVRKEVPNKRPVSGIESPKAKPVTLNEIEADEEPRIDMHDEELN
RVLGGGLVPGSLVLIGGEPGIGKSTLVLQTVLHMPERRILYISGEESARQLKLRADRLTQTSSDCLIVCETSLEQIYVHI
KNTRPDLVIIDSIQTISTESIESSPGSIAQVRECSASILRFAKETHTPVLLIGHINKEGSIAGPKVLEHIVDTVLQFEGD
QHYMYRILRSIKNRFGSTAELGIYEMRQDGLRQVSNPSELLLSQDHEGMSGVAIASAIEGVRPFLIETQALVSSAVYGNP
QRSATGFDIRRMNMLLAVLEKRVGFKLAQKDVFLNIAGGLKVNDPAIDLAVISAILSSNMDAAIEPEVCMAGEIGLSGEI
RPVNRIEQRIGEAEKLGFKRFILPKYNMQGIDMKKLKIELVPVRKVEEAFRGLFG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=349754 IB64_RS06335 WP_005810649.1 1528992..1530359(-) (radA) [Bacteroides fragilis strain DCMOUH0085B]
ATGGCAAAAGAGAAAACCGTTTATGTATGCAGTAACTGCGGACAGGAATCACCCAAATGGGTGGGCAAGTGTCCTTCGTG
TGGCGAGTGGAATACTTATGTAGAAGAAATCGTACGCAAGGAGGTTCCGAATAAACGTCCGGTATCGGGCATCGAATCGC
CTAAAGCCAAACCTGTCACCCTGAACGAGATCGAAGCGGACGAGGAACCCCGCATCGACATGCACGACGAGGAGTTGAAC
CGGGTACTGGGCGGCGGACTGGTGCCGGGATCACTGGTGCTGATCGGTGGCGAACCGGGTATCGGAAAATCGACTCTGGT
ACTTCAAACCGTGCTCCACATGCCCGAACGCAGGATACTCTACATCTCCGGAGAAGAGAGTGCAAGGCAACTGAAGCTCC
GCGCGGACCGACTGACACAAACGTCGAGCGACTGCCTGATTGTGTGCGAAACGTCGTTGGAGCAGATCTATGTGCACATT
AAGAATACACGTCCGGACCTGGTAATCATCGACTCCATACAGACCATATCCACCGAAAGCATCGAGTCTTCGCCGGGAAG
TATCGCGCAAGTGCGGGAGTGCTCGGCCTCCATTCTCCGTTTTGCCAAAGAGACGCATACTCCGGTATTACTGATCGGGC
ATATCAACAAAGAAGGCAGCATTGCCGGTCCGAAGGTACTGGAACACATCGTAGACACCGTGCTCCAGTTTGAGGGGGAC
CAGCATTATATGTACCGTATCCTGCGCAGCATCAAGAACCGCTTTGGCAGTACGGCCGAACTGGGTATTTACGAGATGCG
GCAAGACGGGCTTCGCCAGGTCAGCAACCCGTCGGAGCTGTTGCTGTCGCAAGATCACGAAGGCATGAGCGGGGTAGCCA
TCGCATCTGCCATCGAAGGAGTCAGGCCGTTCCTGATAGAAACACAGGCACTTGTCAGTTCTGCCGTTTACGGCAATCCG
CAACGTTCGGCAACCGGATTCGATATCCGCCGCATGAACATGCTGCTGGCTGTGCTCGAGAAACGTGTCGGCTTCAAGTT
AGCACAGAAAGATGTCTTTCTAAATATTGCCGGGGGGCTGAAGGTGAACGACCCTGCCATCGACCTGGCTGTTATCAGTG
CCATCCTTTCATCCAATATGGATGCCGCCATCGAACCGGAAGTCTGTATGGCAGGTGAAATCGGGTTGTCCGGTGAAATC
CGTCCGGTGAACCGGATCGAACAACGTATCGGTGAAGCCGAGAAGCTTGGATTCAAACGGTTTATCCTGCCTAAGTATAA
TATGCAGGGAATCGACATGAAGAAGCTAAAGATAGAACTGGTGCCGGTGAGAAAGGTGGAAGAGGCGTTCCGGGGACTCT
TCGGATGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(341-427)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(73-219)


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

51.528

100

0.519
  radA Streptococcus pneumoniae Rx1

48.352

100

0.484
  radA Streptococcus pneumoniae D39

48.352

100

0.484
  radA Streptococcus pneumoniae R6

48.352

100

0.484
  radA Streptococcus pneumoniae TIGR4

48.352

100

0.484
  radA Streptococcus mitis NCTC 12261

48.352

100

0.484
  radA Streptococcus mitis SK321

48.132

100

0.481

Multiple sequence alignment