Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   KKQ76_RS12260 Genome accession   NZ_OU015321
Coordinates   2630458..2631807 (-) Length   449 a.a.
NCBI ID   WP_213197367.1    Uniprot ID   -
Organism   Cloacibacterium caeni isolate Isolate2     
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)
ICE 2612701..2651203 2630458..2631807 within 0


Gene organization within MGE regions


Location: 2612701..2651203
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KKQ76_RS12195 - 2612935..2614563 (-) 1629 WP_213197355.1 acyl-CoA carboxylase subunit beta -
  KKQ76_RS12200 - 2615004..2615903 (+) 900 WP_213197356.1 DMT family transporter -
  KKQ76_RS12205 - 2615919..2616998 (+) 1080 WP_213197357.1 PorV/PorQ family protein -
  KKQ76_RS12210 - 2617233..2618012 (+) 780 WP_213197358.1 hypothetical protein -
  KKQ76_RS12215 uvrC 2618184..2619974 (-) 1791 WP_213197359.1 excinuclease ABC subunit UvrC -
  KKQ76_RS12220 - 2620066..2620584 (-) 519 WP_213197360.1 TonB-dependent receptor plug domain-containing protein -
  KKQ76_RS12225 - 2620605..2623745 (-) 3141 WP_213197361.1 exodeoxyribonuclease V subunit beta -
  KKQ76_RS12230 groL 2623922..2625550 (-) 1629 WP_213197362.1 chaperonin GroEL -
  KKQ76_RS12235 groES 2625654..2625932 (-) 279 WP_069800539.1 co-chaperone GroES -
  KKQ76_RS12240 - 2626120..2628504 (-) 2385 WP_213197363.1 M1 family metallopeptidase -
  KKQ76_RS12245 - 2628617..2629192 (-) 576 WP_213197364.1 HupE/UreJ family protein -
  KKQ76_RS12250 - 2629257..2629757 (+) 501 WP_213197365.1 DUF6702 family protein -
  KKQ76_RS12255 - 2629714..2630334 (-) 621 WP_213197366.1 ACP phosphodiesterase -
  KKQ76_RS12260 radA 2630458..2631807 (-) 1350 WP_213197367.1 DNA repair protein RadA Machinery gene
  KKQ76_RS12265 - 2631914..2633521 (+) 1608 WP_213197368.1 CTP synthase -
  KKQ76_RS12270 yidC 2633668..2635473 (+) 1806 WP_213197369.1 membrane protein insertase YidC -
  KKQ76_RS12275 - 2635531..2636115 (-) 585 WP_213197370.1 ribonuclease HII -
  KKQ76_RS12280 - 2636250..2639252 (+) 3003 WP_213197371.1 SusC/RagA family TonB-linked outer membrane protein -
  KKQ76_RS12285 - 2639264..2640715 (+) 1452 WP_213197372.1 SusD/RagB family nutrient-binding outer membrane lipoprotein -
  KKQ76_RS12290 - 2640779..2641285 (+) 507 WP_213197373.1 hypothetical protein -
  KKQ76_RS12295 argS 2641367..2643145 (+) 1779 WP_213197374.1 arginine--tRNA ligase -
  KKQ76_RS12305 - 2644715..2645758 (+) 1044 WP_213197375.1 AMP-binding protein -
  KKQ76_RS12310 arfB 2645761..2646153 (+) 393 WP_213197376.1 alternative ribosome rescue aminoacyl-tRNA hydrolase ArfB -
  KKQ76_RS12315 - 2646252..2646398 (+) 147 WP_213197377.1 hypothetical protein -
  KKQ76_RS12320 - 2646738..2647715 (+) 978 WP_213197378.1 deoxyhypusine synthase family protein -
  KKQ76_RS12325 - 2648051..2648365 (+) 315 WP_213197379.1 MGMT family protein -
  KKQ76_RS12330 recA 2648498..2649496 (-) 999 WP_213197380.1 recombinase RecA Machinery gene
  KKQ76_RS12335 - 2649661..2650230 (+) 570 WP_213197381.1 phosphoglycerate mutase family protein -
  KKQ76_RS12340 - 2650262..2650774 (-) 513 WP_213197382.1 DUF4252 domain-containing protein -

Sequence

Protein


Download         Length: 449 a.a.        Molecular weight: 49832.88 Da        Isoelectric Point: 7.0018

>NTDB_id=1150812 KKQ76_RS12260 WP_213197367.1 2630458..2631807(-) (radA) [Cloacibacterium caeni isolate Isolate2]
MAKIKTAYYCQKCGTQYPQWHGQCKNCGEWNTLVEEIVEKKSSHYDILGSGKQKIINITEVETGTEIRLKTVSEELNRVL
GGGIVLGSVILIGGEPGIGKSTLLLQLALKMKKKILYVSGEESASQIKMRADRITDVQNPNCFLYTETSIEKILMEAKNL
QPDLMIVDSIQTLQSQLLESAAGTVSQIRECSGELIKFAKEKNIPVILVGHITKDGQIAGPKVLEHMVDVVLNFDGDRNH
LFRLLRAQKNRFGSTQEIGIYEMVTQGLKEIKNPSEILITKKFEELSGNAVAVTLEGNRPMLLEIQALVSTAVYGTPQRS
CTGFDSKRLNMLLAVLEKRAGFMLGVKDVFLNITGGIKTDDPALDLAVIAAVLSSNEDLAISEKYCFAGEIGLSGEIRPI
PQIEQRISEAEKLGYEKIFVSNLNKIPKRKFGIRIEEVSKIEEFHEKLF

Nucleotide


Download         Length: 1350 bp        

>NTDB_id=1150812 KKQ76_RS12260 WP_213197367.1 2630458..2631807(-) (radA) [Cloacibacterium caeni isolate Isolate2]
GTGGCAAAAATAAAAACAGCATACTATTGTCAGAAATGTGGAACGCAATATCCACAATGGCACGGACAATGCAAAAACTG
TGGAGAGTGGAATACTTTAGTAGAAGAAATTGTAGAAAAAAAATCTTCTCACTATGATATTCTAGGAAGCGGGAAACAAA
AAATCATTAACATTACCGAAGTAGAAACAGGAACAGAAATTCGTCTGAAAACTGTTTCAGAAGAACTGAACCGTGTTTTA
GGAGGCGGAATTGTTCTAGGCTCTGTTATTCTCATTGGTGGCGAACCTGGAATTGGTAAATCTACGCTTCTACTACAACT
TGCCTTAAAAATGAAGAAGAAAATTCTTTATGTTTCTGGTGAAGAAAGCGCTTCGCAAATTAAAATGCGCGCCGACAGAA
TTACAGATGTTCAAAACCCAAACTGTTTCCTCTACACCGAAACTTCTATCGAAAAAATCTTGATGGAAGCCAAAAATCTA
CAGCCAGATTTGATGATTGTAGACTCTATTCAAACTTTACAATCTCAATTGCTAGAAAGTGCTGCAGGAACGGTTTCACA
GATTAGAGAATGTTCTGGAGAATTGATAAAATTTGCCAAAGAAAAAAACATCCCAGTTATTTTGGTTGGCCACATTACCA
AAGACGGACAAATTGCTGGGCCGAAAGTTCTGGAACACATGGTAGACGTGGTTTTGAATTTTGACGGAGACAGAAATCAC
CTTTTCAGATTACTAAGAGCTCAGAAAAACCGTTTTGGTTCCACTCAAGAAATTGGGATTTACGAAATGGTGACTCAAGG
TTTAAAAGAAATTAAAAATCCTTCGGAAATCTTAATCACCAAAAAATTTGAAGAACTTTCTGGGAATGCAGTTGCCGTTA
CTTTGGAAGGAAACAGGCCCATGCTTTTAGAAATTCAAGCTTTGGTTTCTACTGCAGTTTACGGAACTCCGCAACGCAGT
TGTACTGGTTTTGATAGCAAAAGATTGAACATGCTTCTTGCTGTTTTAGAAAAACGCGCTGGTTTTATGTTGGGCGTAAA
AGACGTTTTCCTGAATATTACAGGTGGAATAAAAACAGACGATCCCGCCCTTGATTTGGCGGTAATCGCAGCAGTTCTAA
GCAGCAACGAAGATTTAGCCATTTCGGAGAAATATTGTTTTGCAGGTGAAATAGGTTTGAGTGGAGAAATTAGACCGATT
CCTCAAATTGAGCAAAGAATTTCGGAAGCAGAAAAATTGGGCTACGAAAAGATTTTTGTATCCAACCTCAACAAAATTCC
TAAAAGAAAATTCGGGATTAGAATAGAAGAAGTAAGTAAAATAGAAGAGTTCCACGAAAAACTTTTTTAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(67-217)

Subunit ChlI of Mg-chelatase (ChlI)

(338-423)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)


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 Streptococcus pneumoniae D39

47.807

100

0.486
  radA Streptococcus pneumoniae Rx1

47.807

100

0.486
  radA Streptococcus pneumoniae R6

47.807

100

0.486
  radA Streptococcus pneumoniae TIGR4

47.807

100

0.486
  radA Streptococcus mitis NCTC 12261

47.797

100

0.483
  radA Bacillus subtilis subsp. subtilis str. 168

47.788

100

0.481
  radA Streptococcus mitis SK321

47.577

100

0.481

Multiple sequence alignment