Detailed information    

insolico Bioinformatically predicted

Overview

Name   recF   Type   Machinery gene
Locus tag   NPA28_RS00020 Genome accession   NZ_CP101718
Coordinates   3032..4144 (+) Length   370 a.a.
NCBI ID   WP_024123582.1    Uniprot ID   -
Organism   Bacillus halotolerans strain S-5     
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 1533..28114 3032..4144 within 0


Gene organization within MGE regions


Location: 1533..28114
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NPA28_RS00010 (NPA28_00010) dnaN 1533..2669 (+) 1137 WP_010332674.1 DNA polymerase III subunit beta -
  NPA28_RS00015 (NPA28_00015) rlbA 2801..3016 (+) 216 WP_003219264.1 ribosome maturation protein RlbA -
  NPA28_RS00020 (NPA28_00020) recF 3032..4144 (+) 1113 WP_024123582.1 DNA replication/repair protein RecF Machinery gene
  NPA28_RS00025 (NPA28_00025) remB 4162..4407 (+) 246 WP_024123583.1 extracellular matrix regulator RemB -
  NPA28_RS00030 (NPA28_00030) gyrB 4463..6379 (+) 1917 WP_024123584.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  NPA28_RS00035 (NPA28_00035) gyrA 6591..9062 (+) 2472 WP_044160296.1 DNA gyrase subunit A -
  NPA28_RS00065 (NPA28_00065) - 14444..15394 (-) 951 WP_059293412.1 YaaC family protein -
  NPA28_RS00070 (NPA28_00070) guaB 15515..16981 (+) 1467 WP_044153635.1 IMP dehydrogenase -
  NPA28_RS00075 (NPA28_00075) dacA 17136..18467 (+) 1332 WP_024123588.1 D-alanyl-D-alanine carboxypeptidase -
  NPA28_RS00080 (NPA28_00080) pdxS 18663..19547 (+) 885 WP_059352994.1 pyridoxal 5'-phosphate synthase lyase subunit PdxS -
  NPA28_RS00085 (NPA28_00085) pdxT 19568..20158 (+) 591 WP_024123590.1 pyridoxal 5'-phosphate synthase glutaminase subunit PdxT -
  NPA28_RS00090 (NPA28_00090) serS 20489..21766 (+) 1278 WP_099043611.1 serine--tRNA ligase -
  NPA28_RS00100 (NPA28_00100) dck 22106..22759 (-) 654 WP_059293410.1 deoxyadenosine/deoxycytidine kinase -
  NPA28_RS00105 (NPA28_00105) dgk 22756..23379 (-) 624 WP_044153628.1 deoxyguanosine kinase -
  NPA28_RS00110 (NPA28_00110) - 23478..24761 (-) 1284 WP_217827272.1 LysM peptidoglycan-binding domain-containing protein -
  NPA28_RS00115 (NPA28_00115) - 24824..25375 (-) 552 WP_059352997.1 isochorismatase family cysteine hydrolase -
  NPA28_RS00120 (NPA28_00120) tadA 25459..25944 (+) 486 WP_024123596.1 tRNA adenosine(34) deaminase TadA -
  NPA28_RS00130 (NPA28_00130) dnaX 26420..28114 (+) 1695 WP_044153622.1 DNA polymerase III subunit gamma/tau -

Sequence

Protein


Download         Length: 370 a.a.        Molecular weight: 42434.44 Da        Isoelectric Point: 7.0882

>NTDB_id=711719 NPA28_RS00020 WP_024123582.1 3032..4144(+) (recF) [Bacillus halotolerans strain S-5]
MYIQNLELTSYRNYEHAELQFENKVNVIIGENAQGKTNLMEAIYVLSMAKSHRTSNDKELIRWDKDYAKIEGRVMKQNGA
IPMQLVISKKGKKGKVNHIEQQKLSQYVGALNTIMFAPEDLNLVKGSPQVRRRFLDMEIGQVSPVYLYDLSLYQKILSQR
NHFLKQLQTRKQTDRTMLDVLTDQLIEVAAKVVVKRLQFTAQLEKWAQPIHSGISRGLEELTLKYHTALEVSDPEDLSKI
GDSYQEAFSKLREKEIERGVTLSGPHRDDVLFYVNGRDVQTYGSQGQQRTTALSLKLAEIDLIHEEIGEYPILLLDDVLS
ELDDYRQSHLLHTIQGRVQTFVTTTSVDGIDHETLRQAGMFRVQNGTLVK

Nucleotide


Download         Length: 1113 bp        

>NTDB_id=711719 NPA28_RS00020 WP_024123582.1 3032..4144(+) (recF) [Bacillus halotolerans strain S-5]
TTGTATATCCAGAACTTAGAACTGACATCTTACCGCAACTATGAACATGCTGAGCTTCAATTTGAAAATAAAGTAAATGT
GATCATTGGAGAAAATGCTCAGGGGAAAACAAACCTCATGGAAGCGATCTATGTCTTGTCCATGGCAAAATCGCATCGGA
CTTCAAATGACAAAGAACTTATCCGGTGGGACAAAGACTATGCTAAAATAGAGGGAAGAGTGATGAAGCAAAACGGAGCG
ATCCCGATGCAGCTCGTCATCTCCAAAAAGGGTAAAAAGGGCAAGGTCAATCATATCGAACAGCAAAAGCTCAGCCAGTA
TGTCGGCGCCCTCAACACCATCATGTTTGCGCCGGAAGATTTAAACCTTGTAAAGGGAAGCCCTCAAGTGAGACGGAGAT
TTCTTGACATGGAAATCGGCCAAGTTTCTCCTGTCTACCTGTATGACCTTTCTCTTTACCAGAAGATTCTTTCCCAGCGA
AATCATTTTTTGAAACAGCTGCAAACAAGAAAACAAACTGACAGAACAATGCTTGATGTTCTGACTGATCAGCTTATTGA
AGTTGCCGCAAAAGTCGTCGTAAAACGTCTGCAGTTCACGGCACAGCTCGAAAAATGGGCGCAGCCTATCCATTCGGGCA
TCTCAAGAGGGCTTGAGGAATTGACGCTGAAGTACCATACGGCGCTTGAGGTATCAGATCCTGAAGACTTGTCGAAAATA
GGAGATAGCTATCAAGAAGCGTTTTCTAAATTAAGAGAAAAAGAAATCGAGCGCGGCGTCACGCTGTCTGGACCTCATCG
GGATGATGTTCTTTTCTATGTGAACGGACGCGATGTGCAGACGTATGGGTCTCAAGGACAGCAGCGGACGACGGCATTAT
CCCTTAAGCTGGCTGAGATTGACCTGATCCATGAAGAAATCGGAGAATATCCCATTTTACTATTGGATGATGTGCTGAGT
GAGCTGGATGATTATCGCCAATCGCACTTGCTTCATACCATCCAGGGCCGTGTACAAACGTTTGTCACAACGACAAGCGT
TGATGGCATTGATCACGAAACCTTACGGCAAGCAGGAATGTTCCGTGTGCAAAACGGTACGTTAGTGAAGTGA

Domains

Predicted by InterproScan.

RecF/RecN/SMC N terminal domain (SMC_N)

(2-365)


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

98.108

100

0.981