Detailed information    

experimental Experimentally validated

Overview

Name   recD/recD2/recDB   Type   Machinery gene
Locus tag   BSU_27480 Genome accession   NC_000964
Coordinates   2806286..2808682 (-) Length   798 a.a.
NCBI ID   NP_390625.1    Uniprot ID   O34481
Organism   Bacillus subtilis subsp. subtilis str. 168     
Function   homologous recombination   
Homologous recombination

Function

The ΔrecD2 mutation was not epistatic to ΔaddAB, ΔrecQ, ΔrecS, ΔhelD, pcrA596 and ΔdinG, but epistatic to recA. These findings show that there is notable interplay between RecD2 and RecG or RuvAB at arrested replication forks, rather than involvement in processing Holliday junctions during canonical double strand break repair.


Genomic Context

Location: 2801286..2813682
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BSU_27430 (BSU27430) glnQ 2802358..2803086 (+) 729 NP_390620.1 glutamine ABC transporter (ATP-binding protein) -
  BSU_27440 (BSU27440) glnH 2803108..2803929 (+) 822 NP_390621.1 glutamine ABC transporter (glutamine-binding lipoprotein) -
  BSU_27450 (BSU27450) glnM 2803990..2804640 (+) 651 NP_390622.1 glutamine ABC transporter (permease) -
  BSU_27460 (BSU27460) glnP 2804657..2805313 (+) 657 NP_390623.1 glutamine ABC transporter (permease) -
  BSU_27468 (BSU27468) yrzQ 2805348..2805479 (-) 132 YP_003097766.1 hypothetical protein -
  BSU_27469 (BSU27469) yrzR 2805501..2805692 (-) 192 YP_003097767.1 hypothetical protein -
  BSU_27470 (BSU27470) yrrD 2805704..2806228 (-) 525 NP_390624.1 hypothetical protein -
  BSU_27480 (BSU27480) recD/recD2/recDB 2806286..2808682 (-) 2397 NP_390625.1 5'-3' helicase associated to SSB; exonuclease V Machinery gene
  BSU_27490 (BSU27490) yrrB 2808707..2809327 (-) 621 NP_390626.1 putative tetratricopeptide repeat family protein -
  BSU_27500 (BSU27500) mnmA 2809413..2810528 (-) 1116 NP_390627.3 tRNA-specific 2-thiouridylase -
  BSU_27510 (BSU27510) iscSA 2810559..2811698 (-) 1140 NP_390629.2 cysteine desulfurase involved in U34 tRNA thiolation -
  BSU_27520 (BSU27520) cymR 2811717..2812133 (-) 417 NP_390630.2 transcriptional regulator of cysteine biosynthesis -
  BSU_27530 (BSU27530) rarA 2812336..2813601 (+) 1266 NP_390631.1 DNA-dependent ATPase active at replication forks Machinery gene

Sequence

Protein


Download         Length: 798 a.a.        Molecular weight: 89183.74 Da        Isoelectric Point: 5.0291

>NTDB_id=355 BSU_27480 NP_390625.1 2806286..2808682(-) (recD/recD2/recDB) [Bacillus subtilis subsp. subtilis str. 168]
MQQHPDQLKLEEEPYLKGTVNTVIYHNDTNLYTVLKVKVTETSEAIEDKAVSVTGYFPALQEEETYTFYGKIVTHPKFGL
QFQAEHFKKEIPTTKEGIIQYLSSDLFEGIGKKTAEEIVKKLGDSAINKILADASVLYDVPRLSKKKADTLAGALQRHQG
LEQIMISLNQFGFGPQLSMKIYQAYESETLEKIQENPYQLVKDVEGIGFGKADELGSRMGLSGNHPERVKAAILYTLETT
CLSEGHTYIETEQLIIDTQSLLNQSAREGQRITEMDAANAIIALGENKDIVIEDGRCYFPSLFYAEQNVAKRVKHIASQT
EYENQFPESEFLLALGELEERMDVQYAPSQKEAIQKALSSPMLLLTGGPGTGKTTVIRGIVELYGELHGVSLDPSAYKKD
EAFPIVLAAPTGRAAKRMSESTGLPAVTIHRLLGWNGAEGFTHTEDQPIEGKLLIIDEASMLDIWLANHLFKAIPDHIQI
IIVGDEDQLPSVGPGQVLRDLLASQVIPTVRLTDIYRQAEGSSIVELAHQMKNGLLPNNLTAPTKDRSFIRCGGSQIKEV
VEKVVANALKKGYTAKDIQVLAPMYRGKAGINELNVMLQDILNPPKEKRRELKFGDVVYRTGDKILQLVNQPENNVFNGD
IGEITSIFYAKENTEKEDMAVVSFDGNEMTFTKKDFNQFTHAYCCSIHKSQGSEFPIVVLPVVKGYYRMLRRNLLYTAIT
RAKKFLILCGEEEALEWGVKNNDATVRQTSLKNRLSVQVEEMDAELEALQKELPFSVHDANIGMEGITPFDFMKEEQQ

Nucleotide


Download         Length: 2397 bp        

>NTDB_id=355 BSU_27480 NP_390625.1 2806286..2808682(-) (recD/recD2/recDB) [Bacillus subtilis subsp. subtilis str. 168]
GTGCAGCAGCATCCGGATCAGCTTAAACTGGAGGAAGAGCCCTATTTAAAAGGGACAGTCAACACAGTCATCTATCATAA
TGACACCAATTTATATACGGTTCTGAAAGTGAAAGTCACAGAGACCTCCGAAGCCATTGAAGATAAAGCCGTATCCGTGA
CGGGCTACTTCCCTGCGCTTCAAGAAGAAGAGACCTACACGTTTTACGGAAAGATCGTAACCCATCCAAAATTCGGGCTC
CAATTTCAGGCGGAGCATTTCAAAAAGGAGATTCCAACGACTAAGGAAGGCATCATTCAATATTTATCGAGTGATTTATT
CGAGGGGATCGGCAAAAAAACAGCTGAAGAAATTGTGAAAAAGCTGGGCGACAGCGCCATTAATAAAATATTGGCTGATG
CTTCAGTGCTTTATGATGTTCCCAGACTCTCAAAAAAGAAAGCAGACACGCTGGCTGGCGCATTGCAGCGGCATCAGGGA
CTGGAGCAAATCATGATTTCCTTGAATCAGTTTGGCTTTGGCCCGCAGCTGTCTATGAAAATCTATCAAGCCTATGAATC
CGAGACGCTTGAAAAGATTCAGGAAAATCCTTATCAGCTTGTGAAGGATGTAGAAGGCATCGGGTTTGGAAAAGCGGATG
AGCTGGGCAGCAGAATGGGTCTTTCGGGTAATCATCCTGAGCGGGTAAAAGCTGCTATTTTGTACACGCTTGAAACGACT
TGTCTGTCAGAGGGGCACACGTACATAGAAACGGAACAGCTGATCATCGACACTCAATCACTGTTAAACCAGTCAGCAAG
GGAAGGGCAGCGCATTACAGAAATGGATGCCGCTAACGCAATTATTGCCCTTGGAGAAAATAAAGACATTGTCATAGAAG
ATGGCCGCTGTTATTTTCCTTCGCTGTTTTACGCAGAACAAAACGTTGCAAAGCGTGTGAAACATATCGCTAGCCAAACC
GAATATGAGAACCAGTTTCCCGAATCAGAGTTTTTGCTCGCGTTGGGAGAACTGGAAGAACGGATGGACGTTCAGTATGC
CCCCAGCCAGAAGGAAGCGATTCAAAAAGCCCTTTCCTCGCCGATGCTTCTTTTAACAGGCGGCCCGGGAACAGGAAAAA
CGACGGTAATCAGAGGGATTGTCGAGCTCTACGGAGAGCTTCACGGTGTGTCACTAGACCCGTCAGCTTATAAAAAGGAT
GAAGCTTTTCCGATTGTTTTGGCCGCTCCGACAGGGAGAGCAGCAAAACGGATGAGTGAATCAACGGGACTCCCTGCAGT
TACGATACACAGGCTGCTTGGCTGGAACGGCGCTGAAGGCTTTACTCATACAGAGGATCAGCCGATCGAAGGGAAGCTGT
TAATTATCGATGAAGCCAGTATGCTTGATATATGGCTGGCGAATCATTTGTTCAAGGCGATCCCTGATCATATACAAATC
ATCATTGTCGGAGACGAAGACCAGCTGCCTTCCGTCGGTCCGGGACAAGTGCTCAGAGACCTGCTGGCATCCCAGGTGAT
TCCGACTGTGAGACTGACAGACATCTATCGCCAGGCAGAAGGGTCATCAATCGTCGAGCTTGCCCACCAGATGAAAAATG
GATTGCTGCCGAACAATTTGACTGCCCCGACAAAGGACCGTTCCTTTATTCGCTGCGGCGGGTCGCAAATCAAAGAAGTA
GTTGAGAAGGTTGTCGCCAATGCATTGAAAAAAGGCTATACAGCAAAGGACATTCAGGTCCTCGCTCCGATGTACAGAGG
AAAAGCCGGCATTAATGAATTGAATGTGATGCTGCAGGACATTTTAAATCCTCCTAAAGAAAAACGGAGAGAATTGAAGT
TCGGGGATGTTGTCTACAGAACCGGAGATAAAATTTTGCAGCTTGTCAATCAGCCGGAAAACAATGTGTTCAACGGAGAT
ATTGGCGAAATCACGTCGATATTTTATGCAAAGGAAAATACAGAAAAAGAAGACATGGCCGTCGTTTCTTTTGACGGCAA
TGAAATGACATTTACGAAAAAAGATTTTAATCAATTTACCCATGCGTATTGCTGTTCTATTCATAAATCGCAGGGAAGTG
AATTTCCGATTGTGGTTTTGCCTGTTGTGAAAGGCTATTATAGAATGCTCAGAAGAAACCTTCTTTATACCGCGATTACA
AGAGCGAAGAAATTTCTCATTTTATGCGGGGAAGAGGAGGCGCTGGAGTGGGGCGTGAAAAATAATGATGCAACTGTCAG
ACAGACCTCCTTGAAAAACAGGCTGTCCGTACAGGTTGAGGAAATGGATGCCGAGCTTGAAGCTTTGCAAAAAGAGCTCC
CGTTCAGCGTACACGACGCCAACATTGGCATGGAAGGCATTACACCATTCGATTTTATGAAAGAAGAACAGCAATAA

Domains

Predicted by InterProScan.

Helix-hairpin-helix containing domain (HHH_RecD2)

(158-248)

ATP-dependent RecD-like DNA helicase SH3 domain (SH3_13)

(594-662)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(681-729)

AAA domain (AAA_30)

(346-553)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB O34481

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

References

[1] Ester Serrano et al. (2021) Recombination proteins differently control the acquisition of homeologous DNA during Bacillus subtilis natural chromosomal transformation. Environmental Microbiology 23(1):512-524. [PMID: 33264457]
[2] Rubén Torres et al. (2017) Interplay between Bacillus subtilis RecD2 and the RecG or RuvAB helicase in recombinational repair. DNA Repair 55:40-46. [PMID: 28527403]
[3] Brian W Walsh et al. (2014) RecD2 helicase limits replication fork stress in Bacillus subtilis. Journal of Bacteriology 196(7):1359-68. [PMID: 24443534]
[4] Begoña Carrasco et al. (2004) Genetic recombination in Bacillus subtilis 168: contribution of Holliday junction processing functions in chromosome segregation. Journal of Bacteriology 186(17):5557-66. [PMID: 15317759]