Detailed information    

insolico Bioinformatically predicted

Overview

Name   recF   Type   Machinery gene
Locus tag   Q8W18_RS00020 Genome accession   NZ_CP132058
Coordinates   3057..4169 (+) Length   370 a.a.
NCBI ID   WP_169056127.1    Uniprot ID   -
Organism   Bacillus pumilus strain F12-21     
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 1538..27728 3057..4169 within 0


Gene organization within MGE regions


Location: 1538..27728
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Q8W18_RS00010 (Q8W18_00010) dnaN 1538..2674 (+) 1137 WP_306011524.1 DNA polymerase III subunit beta -
  Q8W18_RS00015 (Q8W18_00015) yaaA 2825..3040 (+) 216 WP_041815077.1 S4 domain-containing protein YaaA -
  Q8W18_RS00020 (Q8W18_00020) recF 3057..4169 (+) 1113 WP_169056127.1 DNA replication/repair protein RecF Machinery gene
  Q8W18_RS00025 (Q8W18_00025) remB 4187..4432 (+) 246 WP_061406453.1 extracellular matrix regulator RemB -
  Q8W18_RS00030 (Q8W18_00030) gyrB 4490..6406 (+) 1917 WP_169056155.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  Q8W18_RS00035 (Q8W18_00035) gyrA 6639..9140 (+) 2502 WP_169056128.1 DNA gyrase subunit A -
  Q8W18_RS00065 (Q8W18_00065) - 14535..15503 (-) 969 WP_169057713.1 YaaC family protein -
  Q8W18_RS00070 (Q8W18_00070) guaB 15625..17091 (+) 1467 WP_003218109.1 IMP dehydrogenase -
  Q8W18_RS00075 (Q8W18_00075) - 17251..18576 (+) 1326 WP_058015907.1 D-alanyl-D-alanine carboxypeptidase family protein -
  Q8W18_RS00080 (Q8W18_00080) - 18618..20096 (-) 1479 WP_306011525.1 PLP-dependent aminotransferase family protein -
  Q8W18_RS00085 (Q8W18_00085) pdxS 20341..21225 (+) 885 WP_034666107.1 pyridoxal 5'-phosphate synthase lyase subunit PdxS -
  Q8W18_RS00090 (Q8W18_00090) pdxT 21247..21837 (+) 591 WP_306011526.1 pyridoxal 5'-phosphate synthase glutaminase subunit PdxT -
  Q8W18_RS00095 (Q8W18_00095) - 21881..22189 (-) 309 Protein_13 deoxynucleoside kinase -
  Q8W18_RS00100 (Q8W18_00100) - 22186..22809 (-) 624 WP_169057718.1 deoxynucleoside kinase -
  Q8W18_RS00105 (Q8W18_00105) - 22889..24190 (-) 1302 WP_268498372.1 glycoside hydrolase family 18 protein -
  Q8W18_RS00110 (Q8W18_00110) - 24236..24790 (-) 555 WP_306011527.1 isochorismatase family cysteine hydrolase -
  Q8W18_RS00115 (Q8W18_00115) tadA 24870..25346 (+) 477 WP_169057721.1 tRNA adenosine(34) deaminase TadA -
  Q8W18_RS00125 (Q8W18_00125) dnaX 26016..27728 (+) 1713 WP_306011528.1 DNA polymerase III subunit gamma/tau -

Sequence

Protein


Download         Length: 370 a.a.        Molecular weight: 42563.67 Da        Isoelectric Point: 8.3044

>NTDB_id=867021 Q8W18_RS00020 WP_169056127.1 3057..4169(+) (recF) [Bacillus pumilus strain F12-21]
MYIQSLALTSYRNYEQTKLQFDNKVNVMIGENAQGKTNLMEAIYVLSMAKSHRTSNDKELIRWDQDYAKIEGRVIKKNGP
LPMQLVISKKGKKGKVNHIEQQKLSHYVGALNTIMFAPEDLSLVKGSPQIRRRFLDMEIGQVSAVYLHDLSLYQKILSQR
NHYLKQLQTRRQTDQAMLEVLTEQLIDAAAKVVKRRLTFTKQLEKWAQPLHFGISRELETLTLQYQTAIEVSEASDLSKI
KNSYEESFQKLRDREIDRGVTLWGPHRDDLLFFVNGRDVQTYGSQGQQRTTALSLKLAEIDLIHEEIGEYPILLLDDVLS
ELDDYRQSHLLHTIQGRVQTFVTTTSVEGIDHATLKEAEIFRVASGKVID

Nucleotide


Download         Length: 1113 bp        

>NTDB_id=867021 Q8W18_RS00020 WP_169056127.1 3057..4169(+) (recF) [Bacillus pumilus strain F12-21]
ATGTACATTCAAAGTCTGGCGTTAACTTCATACCGAAACTATGAACAAACCAAGCTTCAATTCGACAACAAGGTGAATGT
CATGATCGGTGAGAATGCCCAAGGTAAAACGAACTTGATGGAAGCAATCTATGTATTGTCGATGGCAAAGTCGCATCGTA
CGTCAAATGATAAAGAACTTATCCGATGGGACCAAGACTATGCTAAAATAGAAGGTAGAGTCATTAAAAAAAATGGTCCA
CTCCCAATGCAGCTCGTGATCTCCAAAAAAGGGAAAAAGGGCAAGGTCAATCACATTGAACAACAGAAGCTCAGTCATTA
TGTTGGTGCGCTAAACACCATCATGTTTGCACCAGAGGACTTAAGTCTTGTAAAGGGCAGCCCGCAAATCCGCAGAAGAT
TCCTCGATATGGAGATTGGACAAGTTTCTGCTGTCTACTTGCATGATTTATCGCTCTATCAAAAAATTCTCTCTCAGCGG
AATCATTACTTGAAACAACTGCAGACAAGAAGGCAAACGGATCAAGCGATGCTGGAGGTTTTAACAGAGCAGTTGATTGA
TGCGGCAGCGAAGGTTGTCAAAAGACGACTGACTTTTACGAAACAGCTCGAAAAATGGGCGCAGCCGTTGCATTTTGGCA
TATCTAGAGAGCTAGAAACACTCACGCTCCAATACCAAACGGCGATAGAGGTATCAGAAGCGTCAGACTTGTCGAAAATA
AAGAATAGCTATGAAGAATCGTTTCAGAAACTAAGAGACAGAGAAATAGACCGAGGAGTGACGTTGTGGGGACCTCACAG
AGATGACCTTCTTTTCTTTGTGAATGGTCGGGATGTTCAGACATATGGCTCTCAAGGGCAGCAAAGAACAACAGCTCTTT
CACTAAAGCTGGCAGAAATCGACTTGATACACGAAGAAATTGGAGAATATCCCATTCTTCTACTCGATGATGTTTTATCT
GAACTTGATGATTACAGACAGTCTCATTTGCTCCATACCATTCAGGGACGTGTACAGACCTTCGTCACCACAACAAGTGT
TGAAGGCATCGATCACGCCACCTTGAAAGAAGCGGAAATTTTCAGAGTAGCCAGTGGAAAAGTAATTGACTGA

Domains

Predicted by InterproScan.

RecF/RecN/SMC N terminal domain (SMC_N)

(2-353)


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

82.927

99.73

0.827