Detailed information    

insolico Bioinformatically predicted

Overview

Name   recF   Type   Machinery gene
Locus tag   D9C09_RS03550 Genome accession   NZ_CP032852
Coordinates   679206..680318 (+) Length   370 a.a.
NCBI ID   WP_014478578.1    Uniprot ID   -
Organism   Bacillus subtilis subsp. subtilis strain GFR-12     
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)
Prophage 657758..704210 679206..680318 within 0


Gene organization within MGE regions


Location: 657758..704210
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D9C09_RS03440 (D9C09_03440) ssbA 657758..658276 (-) 519 WP_003219228.1 single-stranded DNA-binding protein SsbA Machinery gene
  D9C09_RS03445 (D9C09_03445) rpsF 658317..658604 (-) 288 WP_003244064.1 30S ribosomal protein S6 -
  D9C09_RS03450 (D9C09_03450) ychF 658715..659815 (-) 1101 WP_003242727.1 redox-regulated ATPase YchF -
  D9C09_RS03455 (D9C09_03455) yyaE 659942..661945 (-) 2004 WP_069837910.1 molybdopterin-dependent oxidoreductase -
  D9C09_RS03460 (D9C09_03460) yyzM 661996..662202 (-) 207 WP_003226838.1 DUF951 family protein -
  D9C09_RS03465 (D9C09_03465) - 662296..663312 (-) 1017 WP_010886647.1 membrane protein -
  D9C09_RS03470 (D9C09_03470) yyaC 663772..664389 (+) 618 WP_003243890.1 spore protease YyaC -
  D9C09_RS03475 (D9C09_03475) - 664506..665656 (+) 1151 WP_087614170.1 IS3 family transposase -
  D9C09_RS03480 (D9C09_03480) spo0J 665719..666567 (-) 849 WP_003226832.1 stage 0 sporulation protein Spo0J -
  D9C09_RS03485 (D9C09_03485) soj 666560..667321 (-) 762 WP_003219244.1 sporulation initiation inhibitor protein Soj -
  D9C09_RS03490 (D9C09_03490) yyaB 667569..668009 (+) 441 WP_014481510.1 PH domain-containing protein -
  D9C09_RS03495 (D9C09_03495) noc 668060..668911 (-) 852 WP_003226829.1 nucleoid occlusion protein -
  D9C09_RS03500 (D9C09_03500) rsmG 669033..669752 (-) 720 WP_069837911.1 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG -
  D9C09_RS03505 (D9C09_03505) mnmG 669766..671652 (-) 1887 WP_003226825.1 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG -
  D9C09_RS03510 (D9C09_03510) mnmE 671674..673053 (-) 1380 WP_014478576.1 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE -
  D9C09_RS03515 (D9C09_03515) jag 673364..673990 (-) 627 WP_069837912.1 RNA-binding cell elongation regulator Jag/EloR -
  D9C09_RS03520 (D9C09_03520) spoIIIJ 673987..674772 (-) 786 WP_010886648.1 YidC family membrane integrase SpoIIIJ -
  D9C09_RS03525 (D9C09_03525) rnpA 674916..675266 (-) 351 WP_014481515.1 ribonuclease P protein component -
  D9C09_RS03530 (D9C09_03530) rpmH 675418..675552 (-) 135 WP_003178075.1 50S ribosomal protein L34 -
  D9C09_RS03535 (D9C09_03535) dnaA 676179..677519 (+) 1341 WP_003242674.1 chromosomal replication initiator protein DnaA -
  D9C09_RS03540 (D9C09_03540) dnaN 677708..678844 (+) 1137 WP_003226811.1 DNA polymerase III subunit beta -
  D9C09_RS03545 (D9C09_03545) rlbA 678975..679190 (+) 216 WP_003226810.1 ribosome maturation protein RlbA -
  D9C09_RS03550 (D9C09_03550) recF 679206..680318 (+) 1113 WP_014478578.1 DNA replication/repair protein RecF Machinery gene
  D9C09_RS03555 (D9C09_03555) remB 680336..680581 (+) 246 WP_003219266.1 extracellular matrix regulator RemB -
  D9C09_RS03560 (D9C09_03560) gyrB 680636..682552 (+) 1917 WP_003226808.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  D9C09_RS03565 (D9C09_03565) gyrA 682763..685228 (+) 2466 WP_014475555.1 DNA topoisomerase (ATP-hydrolyzing) subunit A -
  D9C09_RS03595 (D9C09_03595) yaaC 690552..691499 (-) 948 WP_069837173.1 YaaC family protein -
  D9C09_RS03600 (D9C09_03600) guaB 691620..693086 (+) 1467 WP_069837174.1 IMP dehydrogenase -
  D9C09_RS03605 (D9C09_03605) dacA 693239..694570 (+) 1332 WP_015482683.1 D-alanyl-D-alanine carboxypeptidase -
  D9C09_RS03610 (D9C09_03610) pdxS 694767..695651 (+) 885 WP_003247145.1 pyridoxal 5'-phosphate synthase lyase subunit PdxS -
  D9C09_RS03615 (D9C09_03615) pdxT 695673..696263 (+) 591 WP_069837175.1 pyridoxal 5'-phosphate synthase glutaminase subunit PdxT -
  D9C09_RS03620 (D9C09_03620) serS 696585..697862 (+) 1278 WP_021479916.1 serine--tRNA ligase -
  D9C09_RS03630 (D9C09_03630) dck 698201..698854 (-) 654 WP_003226792.1 deoxyadenosine/deoxycytidine kinase -
  D9C09_RS03635 (D9C09_03635) dgk 698851..699474 (-) 624 WP_003226790.1 deoxyguanosine kinase -
  D9C09_RS03640 (D9C09_03640) sleL 699573..700856 (-) 1284 WP_069837176.1 glycoside hydrolase family 18 protein -
  D9C09_RS03645 (D9C09_03645) yaaI 700926..701471 (-) 546 WP_069837177.1 isochorismatase family cysteine hydrolase -
  D9C09_RS03650 (D9C09_03650) tadA 701557..702042 (+) 486 WP_003226784.1 tRNA adenosine(34) deaminase TadA -
  D9C09_RS03660 (D9C09_03660) dnaX 702519..704210 (+) 1692 WP_069837178.1 DNA polymerase III subunit gamma/tau -

Sequence

Protein


Download         Length: 370 a.a.        Molecular weight: 42304.34 Da        Isoelectric Point: 7.3660

>NTDB_id=319149 D9C09_RS03550 WP_014478578.1 679206..680318(+) (recF) [Bacillus subtilis subsp. subtilis strain GFR-12]
MYIQNLELSSYRNYDHAELQFENKVNVIIGENAQGKTNLMEAIYVLSMAKSHRTSNDKELIRWDKDYAKIEGRVMKQNGA
IPMQLVISKKGKKGKVNHIEQQKLSQYVGALNTIMFAPEDLNLVKGSPQVRRRFLDMEIGQVSPVYLHDLSLYQKILSQR
NHFLKQLQTRKQTDRTMLDVLTDQLIEVAAKVVVKRLQFTAQLEKWAQPIHAGISRGLEELTLKYHTALDVSDPLDLSKI
GDSYQEAFSKLREKEIERGVTLSGPHRDDVLFYVNGRDVQTYGSQGQQRTTALSLKLAEIDLIHEEIGEYPILLLDDVLS
ELDDYRQSHLLHTIQGRVQTFVTTTSVDGIDHETLRQAGMFRVQNGALVK

Nucleotide


Download         Length: 1113 bp        

>NTDB_id=319149 D9C09_RS03550 WP_014478578.1 679206..680318(+) (recF) [Bacillus subtilis subsp. subtilis strain GFR-12]
TTGTATATCCAGAACTTAGAACTTTCATCTTACCGCAACTACGACCATGCTGAACTTCAATTTGAAAATAAAGTAAATGT
GATCATCGGAGAAAACGCCCAGGGGAAGACAAACCTCATGGAGGCGATCTATGTCTTGTCCATGGCGAAATCGCACCGGA
CATCAAATGACAAAGAACTTATACGGTGGGACAAAGACTATGCTAAAATAGAGGGAAGAGTGATGAAGCAAAACGGGGCG
ATCCCGATGCAGCTCGTCATCTCCAAAAAGGGTAAAAAGGGCAAGGTCAATCATATTGAACAGCAAAAGCTCAGCCAGTA
TGTCGGGGCCCTCAACACCATTATGTTCGCGCCGGAAGATTTAAATCTTGTAAAGGGAAGCCCTCAAGTGAGAAGGCGGT
TTCTTGACATGGAAATTGGACAGGTTTCTCCCGTCTATCTTCATGATCTTTCTCTTTACCAGAAAATCCTTTCCCAGCGG
AATCATTTTTTGAAACAGCTGCAAACAAGAAAACAAACTGACCGGACGATGCTCGATGTTCTGACCGATCAGCTTATAGA
AGTTGCAGCAAAAGTCGTCGTAAAACGCCTGCAGTTTACAGCACAGCTCGAGAAATGGGCGCAGCCCATCCATGCAGGCA
TCTCAAGAGGGCTTGAAGAACTTACCCTGAAATACCATACAGCTCTTGATGTATCAGATCCCCTAGATTTGTCGAAAATA
GGAGATAGCTATCAAGAAGCGTTTTCTAAATTAAGAGAAAAAGAAATTGAGCGTGGTGTGACGCTGTCAGGGCCTCATCG
CGATGATGTTCTTTTCTATGTGAACGGACGCGATGTGCAGACGTATGGTTCTCAAGGACAGCAGCGAACGACGGCGTTGT
CCCTTAAGCTGGCGGAGATTGACCTGATCCATGAAGAAATCGGAGAATATCCCATTTTACTATTGGATGATGTACTGAGT
GAACTGGATGATTATCGCCAGTCACACTTGCTTCATACGATCCAAGGCCGTGTACAAACGTTTGTCACAACGACAAGCGT
TGATGGCATTGATCACGAAACCTTACGTCAAGCAGGAATGTTCCGTGTGCAAAATGGTGCGTTAGTGAAGTGA

Domains

Predicted by InterproScan.

RecF/RecN/SMC N terminal domain (SMC_N)

(2-350)


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
  recF Bacillus subtilis subsp. subtilis str. 168

99.459

100

0.995

Multiple sequence alignment