Detailed information    

insolico Bioinformatically predicted

Overview

Name   recF   Type   Machinery gene
Locus tag   H4K32_RS08305 Genome accession   NZ_CP059855
Coordinates   1589348..1590460 (-) Length   370 a.a.
NCBI ID   WP_024084783.1    Uniprot ID   -
Organism   Bacillus velezensis strain Pm9     
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 1547690..1610475 1589348..1590460 within 0


Gene organization within MGE regions


Location: 1547690..1610475
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H4K32_RS08080 rsmI 1548024..1548905 (-) 882 WP_014304192.1 16S rRNA (cytidine(1402)-2'-O)-methyltransferase -
  H4K32_RS08085 - 1548880..1549179 (-) 300 WP_004264714.1 GIY-YIG nuclease family protein -
  H4K32_RS08090 - 1549166..1549909 (-) 744 WP_014304191.1 tRNA1(Val) (adenine(37)-N6)-methyltransferase -
  H4K32_RS08095 yabA 1549970..1550329 (-) 360 WP_004264720.1 replication initiation-control protein YabA -
  H4K32_RS08100 ricT 1550344..1551171 (-) 828 WP_004264723.1 competence/sporulation regulator complex protein RicT -
  H4K32_RS08105 holB 1551174..1552163 (-) 990 WP_007409919.1 DNA polymerase III subunit delta' -
  H4K32_RS08110 - 1552175..1552615 (-) 441 WP_004264730.1 YaaR family protein -
  H4K32_RS08115 darA 1552628..1552957 (-) 330 WP_004264734.1 cyclic di-AMP receptor DarA -
  H4K32_RS08120 tmk 1553028..1553666 (-) 639 WP_004264737.1 dTMP kinase -
  H4K32_RS08125 - 1553663..1555096 (-) 1434 WP_115996089.1 aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme -
  H4K32_RS08130 - 1555174..1556292 (-) 1119 WP_182275179.1 toxic anion resistance protein -
  H4K32_RS08135 - 1556308..1556922 (-) 615 WP_060658629.1 5-bromo-4-chloroindolyl phosphate hydrolysis family protein -
  H4K32_RS08140 - 1557071..1557265 (-) 195 WP_004264749.1 sigma factor G inhibitor Gin -
  H4K32_RS08170 - 1562664..1562927 (-) 264 WP_003150686.1 pro-sigmaK processing inhibitor BofA family protein -
  H4K32_RS08175 - 1562988..1563212 (-) 225 WP_007408755.1 YaaL family protein -
  H4K32_RS08180 recR 1563231..1563827 (-) 597 WP_003150697.1 recombination protein RecR -
  H4K32_RS08185 - 1563842..1564165 (-) 324 WP_003150700.1 YbaB/EbfC family nucleoid-associated protein -
  H4K32_RS08190 dnaX 1564190..1565881 (-) 1692 WP_003150701.1 DNA polymerase III subunit gamma/tau -
  H4K32_RS08200 tadA 1566363..1566845 (-) 483 WP_003150702.1 tRNA adenosine(34) deaminase TadA -
  H4K32_RS08205 - 1566967..1567479 (+) 513 WP_046376732.1 cysteine hydrolase family protein -
  H4K32_RS08210 - 1567551..1568834 (+) 1284 WP_117614479.1 LysM peptidoglycan-binding domain-containing protein -
  H4K32_RS08215 - 1568930..1569553 (+) 624 WP_032858523.1 deoxynucleoside kinase -
  H4K32_RS08220 dck 1569550..1570203 (+) 654 WP_015388792.1 deoxyadenosine/deoxycytidine kinase -
  H4K32_RS08230 - 1570644..1571789 (+) 1146 WP_003150707.1 glycerate kinase -
  H4K32_RS08235 serS 1571801..1573078 (-) 1278 WP_003150709.1 serine--tRNA ligase -
  H4K32_RS08240 pdxT 1573398..1573988 (-) 591 WP_003150711.1 pyridoxal 5'-phosphate synthase glutaminase subunit PdxT -
  H4K32_RS08245 pdxS 1574010..1574894 (-) 885 WP_003150714.1 pyridoxal 5'-phosphate synthase lyase subunit PdxS -
  H4K32_RS08250 dacA 1575092..1576423 (-) 1332 WP_182275180.1 D-alanyl-D-alanine carboxypeptidase -
  H4K32_RS08255 guaB 1576576..1578042 (-) 1467 WP_003150717.1 IMP dehydrogenase -
  H4K32_RS08260 - 1578163..1579113 (+) 951 WP_063174611.1 YaaC family protein -
  H4K32_RS08290 gyrA 1584434..1586893 (-) 2460 WP_004392898.1 DNA gyrase subunit A -
  H4K32_RS08295 gyrB 1587109..1589025 (-) 1917 WP_004392900.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  H4K32_RS08300 remB 1589085..1589330 (-) 246 WP_004392908.1 extracellular matrix regulator RemB -
  H4K32_RS08305 recF 1589348..1590460 (-) 1113 WP_024084783.1 DNA replication/repair protein RecF Machinery gene
  H4K32_RS08310 rlbA 1590476..1590691 (-) 216 WP_004392910.1 ribosome maturation protein RlbA -
  H4K32_RS08315 dnaN 1590826..1591962 (-) 1137 WP_004392911.1 DNA polymerase III subunit beta -
  H4K32_RS08320 dnaA 1592147..1593487 (-) 1341 WP_004392913.1 chromosomal replication initiator protein DnaA -
  H4K32_RS08325 rpmH 1594108..1594242 (+) 135 WP_003178075.1 50S ribosomal protein L34 -
  H4K32_RS08330 rnpA 1594397..1594747 (+) 351 WP_004392944.1 ribonuclease P protein component -
  H4K32_RS08335 spoIIIJ 1594908..1595657 (+) 750 WP_007409906.1 YidC family membrane integrase SpoIIIJ -
  H4K32_RS08340 jag 1595654..1596295 (+) 642 WP_004392953.1 RNA-binding cell elongation regulator Jag/EloR -
  H4K32_RS08345 mnmE 1596584..1597963 (+) 1380 WP_004392954.1 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE -
  H4K32_RS08350 mnmG 1597980..1599866 (+) 1887 WP_004392959.1 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG -
  H4K32_RS08355 rsmG 1599880..1600599 (+) 720 WP_014306213.1 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG -
  H4K32_RS08360 noc 1600721..1601572 (+) 852 WP_007409900.1 nucleoid occlusion protein -
  H4K32_RS08365 soj 1601871..1602632 (+) 762 WP_007409899.1 sporulation initiation inhibitor protein Soj -
  H4K32_RS08370 - 1602625..1603476 (+) 852 WP_004392966.1 ParB/RepB/Spo0J family partition protein -
  H4K32_RS08375 yyaC 1603506..1604120 (-) 615 WP_004392969.1 spore protease YyaC -
  H4K32_RS08380 - 1604293..1604685 (-) 393 WP_234949536.1 GNAT family N-acetyltransferase -
  H4K32_RS08385 - 1604924..1605949 (+) 1026 WP_088005468.1 hypothetical protein -
  H4K32_RS08390 - 1606035..1606241 (+) 207 WP_057080375.1 DUF951 domain-containing protein -
  H4K32_RS08395 - 1606288..1608291 (+) 2004 WP_046560185.1 molybdopterin-dependent oxidoreductase -
  H4K32_RS08400 ychF 1608418..1609518 (+) 1101 WP_004392975.1 redox-regulated ATPase YchF -
  H4K32_RS08405 rpsF 1609630..1609917 (+) 288 WP_004392977.1 30S ribosomal protein S6 -
  H4K32_RS08410 ssbA 1609957..1610475 (+) 519 WP_004392979.1 single-stranded DNA-binding protein SsbA Machinery gene

Sequence

Protein


Download         Length: 370 a.a.        Molecular weight: 42428.35 Da        Isoelectric Point: 7.0882

>NTDB_id=472286 H4K32_RS08305 WP_024084783.1 1589348..1590460(-) (recF) [Bacillus velezensis strain Pm9]
MYIQNLELTSYRNYERAELQFENKVNVIIGENAQGKTNLMEAIYVLSMAKSHRTSNDKELIRWDEDYAKIEGRVMKRNGD
IPMQLVISKKGKKGKVNHIEQQKLSQYVGALNTIMFAPEDLNLVKGSPQVRRRFLDMEIGQVSAVYLYDLSLYQKILSQR
NHFLKQLQSRKQTDRTMLDVLTDQLIEAAAKVVARRLQFTAQLEKWAQPIHSGISRGLEELTLKYHTALDVSDPKDLSKI
GNSYQESFSKLKEKEIERGVTLFGPHRDDVLFYVNGRDVQTYGSQGQQRTTALSLKLAEIDLIHEEIGEYPILLLDDVLS
ELDDYRQSHLLHTIQGRVQTFVTTTSVDGIDHDTLHQAGMFRVENGALVK

Nucleotide


Download         Length: 1113 bp        

>NTDB_id=472286 H4K32_RS08305 WP_024084783.1 1589348..1590460(-) (recF) [Bacillus velezensis strain Pm9]
TTGTATATCCAAAATTTAGAATTAACATCCTACCGTAATTATGAGCGCGCTGAGCTTCAATTCGAAAACAAGGTGAATGT
GATCATCGGGGAAAATGCCCAGGGCAAAACCAATCTGATGGAAGCCATCTATGTCCTTTCGATGGCAAAATCACACCGCA
CCTCAAATGACAAAGAACTTATACGGTGGGACGAAGACTATGCTAAAATAGAAGGAAGAGTGATGAAGCGCAACGGGGAC
ATCCCGATGCAGCTTGTCATCTCCAAAAAAGGTAAAAAGGGCAAGGTCAATCATATAGAGCAGCAAAAACTCAGTCAGTA
TGTCGGAGCGCTGAACACCATTATGTTTGCCCCTGAGGATTTAAATCTCGTCAAAGGAAGCCCTCAGGTGAGGAGAAGAT
TTCTCGATATGGAGATCGGGCAGGTTTCTGCCGTTTATCTGTATGATTTATCTCTTTATCAAAAAATCCTTTCACAGCGG
AATCATTTTCTGAAACAGCTGCAAAGCCGGAAACAGACTGACCGGACCATGCTTGACGTTCTCACTGATCAGCTGATTGA
AGCAGCCGCAAAAGTTGTCGCCAGACGTCTGCAGTTTACGGCGCAGCTTGAAAAATGGGCGCAGCCGATCCATTCCGGCA
TTTCCCGGGGACTTGAAGAACTGACGCTTAAGTATCACACGGCGCTTGATGTATCAGATCCCAAAGATTTGTCGAAAATA
GGTAACAGCTACCAGGAATCTTTTTCGAAATTAAAAGAAAAAGAAATAGAACGAGGCGTCACATTATTCGGACCGCATCG
GGATGATGTCCTTTTTTATGTGAACGGACGCGATGTGCAGACTTACGGTTCGCAGGGACAGCAGCGTACGACGGCTTTGT
CTCTGAAGCTGGCTGAAATAGATTTGATTCATGAAGAAATCGGAGAATACCCCATTTTACTTTTGGATGATGTACTAAGC
GAGCTGGATGATTACCGACAGTCCCATTTGCTTCATACGATCCAAGGCCGTGTGCAGACATTTGTCACCACGACGAGCGT
GGATGGCATTGACCACGATACCTTACATCAAGCAGGAATGTTCCGTGTGGAAAACGGTGCGTTAGTGAAGTGA

Domains

Predicted by InterproScan.

RecF/RecN/SMC N terminal domain (SMC_N)

(2-346)


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

94.324

100

0.943