Detailed information    

insolico Bioinformatically predicted

Overview

Name   comA   Type   Machinery gene
Locus tag   VRB78_RS14865 Genome accession   NZ_CP142164
Coordinates   3367888..3370113 (-) Length   741 a.a.
NCBI ID   WP_338487337.1    Uniprot ID   -
Organism   Pseudomonas trivialis strain P_trivialis_B08_1     
Function   ssDNA transport through the inner membrane (predicted from homology)   
DNA binding and uptake

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 3358686..3378782 3367888..3370113 within 0


Gene organization within MGE regions


Location: 3358686..3378782
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VRB78_RS14790 (VRB78_14790) - 3358686..3359648 (+) 963 WP_338487324.1 LysR family transcriptional regulator -
  VRB78_RS14795 (VRB78_14795) - 3359833..3360018 (-) 186 WP_003232175.1 hypothetical protein -
  VRB78_RS14800 (VRB78_14800) - 3360114..3360443 (-) 330 WP_338487326.1 helix-turn-helix transcriptional regulator -
  VRB78_RS14805 (VRB78_14805) - 3360635..3360769 (+) 135 WP_338477673.1 hypothetical protein -
  VRB78_RS14810 (VRB78_14810) - 3360864..3361322 (-) 459 WP_003232172.1 Hsp20 family protein -
  VRB78_RS14815 (VRB78_14815) - 3361667..3362137 (+) 471 WP_338487328.1 hypothetical protein -
  VRB78_RS14825 (VRB78_14825) - 3362536..3363207 (+) 672 WP_003174664.1 Bax inhibitor-1/YccA family protein -
  VRB78_RS14830 (VRB78_14830) murB 3363272..3364291 (-) 1020 WP_338487331.1 UDP-N-acetylmuramate dehydrogenase -
  VRB78_RS14835 (VRB78_14835) - 3364288..3364752 (-) 465 WP_338487333.1 low molecular weight protein-tyrosine-phosphatase -
  VRB78_RS14840 (VRB78_14840) kdsB 3364752..3365516 (-) 765 WP_338477727.1 3-deoxy-manno-octulosonate cytidylyltransferase -
  VRB78_RS14845 (VRB78_14845) - 3365513..3365698 (-) 186 WP_003174668.1 Trm112 family protein -
  VRB78_RS14850 (VRB78_14850) lpxK 3365723..3366733 (-) 1011 WP_338487335.1 tetraacyldisaccharide 4'-kinase -
  VRB78_RS14855 (VRB78_14855) - 3366733..3367161 (-) 429 WP_209982774.1 biopolymer transporter ExbD -
  VRB78_RS14860 (VRB78_14860) exbB 3367158..3367793 (-) 636 WP_015372391.1 MotA/TolQ/ExbB proton channel family protein Machinery gene
  VRB78_RS14865 (VRB78_14865) comA 3367888..3370113 (-) 2226 WP_338487337.1 DNA internalization-related competence protein ComEC/Rec2 Machinery gene
  VRB78_RS14870 (VRB78_14870) - 3370249..3370764 (+) 516 WP_209982778.1 DUF2062 domain-containing protein -
  VRB78_RS14875 (VRB78_14875) - 3370900..3373653 (+) 2754 WP_338487339.1 response regulator -
  VRB78_RS14880 (VRB78_14880) - 3373735..3374175 (+) 441 WP_338477731.1 hypothetical protein -
  VRB78_RS14885 (VRB78_14885) - 3374172..3374573 (+) 402 WP_057007490.1 META domain-containing protein -
  VRB78_RS14890 (VRB78_14890) - 3374700..3375275 (-) 576 WP_338487341.1 transposase -
  VRB78_RS14895 (VRB78_14895) - 3375272..3375904 (-) 633 WP_338487343.1 helix-turn-helix domain-containing protein -
  VRB78_RS14900 (VRB78_14900) - 3376022..3376483 (-) 462 WP_338477732.1 TlpA disulfide reductase family protein -
  VRB78_RS14905 (VRB78_14905) arsC 3376599..3376952 (+) 354 WP_338487345.1 arsenate reductase (glutaredoxin) -
  VRB78_RS14910 (VRB78_14910) wrbA 3376949..3377554 (+) 606 WP_338487348.1 NAD(P)H:quinone oxidoreductase -
  VRB78_RS14915 (VRB78_14915) - 3377647..3378782 (-) 1136 Protein_2940 IS3 family transposase -

Sequence

Protein


Download         Length: 741 a.a.        Molecular weight: 80582.55 Da        Isoelectric Point: 11.1240

>NTDB_id=922337 VRB78_RS14865 WP_338487337.1 3367888..3370113(-) (comA) [Pseudomonas trivialis strain P_trivialis_B08_1]
MKTGMFALALGLLTLRVLPALPATGWLLAMLVLALMLLPFRTFALAFFLFGLSWACISAQWALNDRLTPALDGQTRWLEG
RVVGLPQQTSTGVRFELADSRSRHARLPRRIRVSWHGGPTVRSGERWRLAVTLKRPSGLLNFHGFDHEAWLLARRIGATG
TVKDGERLTPARNAWRDTLRQRLMTVDAQSREAGLAALVLGDGSGLADEDWQVLQDTGTVHLLVISGQHIGLLAGLIYGL
IALLARYGCWPATWPWLSWACGLAFVAALGYGLLAGFGVPVQRACVMVGLVLLWRLRFRHLGAWWPLLLALNGVLVLEPL
ASLQPGFWLSFGAVAVLILAFGGRLGPWRLWQGWTRAQWLIAIGLFPLLLMLDLPISLSAPLANLVAVPWISLVVLPLAL
LGTALLTVPLVGEGLLWLAGGALDLLFQGLALLAAHLSAWIPAEVPLGFWLVSLVGALIVLLPGGVPFRLLGWPMLLLAV
FPPRELVPHGRVDVVQLDVGQGQAIILRTRHHTVLYDAGPRSRATDLGARVVLPSLKKLGIASLDLMLISHADADHAGGA
AAVARGLPVRRVVGGETDGLPEFLGTQPCISGERWQWDGVSFELWQWPGAVDGNPKSCVLQVQANGERLLLTGDIDRAAE
RALLDSPLALRTDWLQAPHHGSRSSSSRPFVQQLAPTSVLISRGRGNAFGHPHAQVLERYRAVGSRVYDSAEQGAVRLQL
GAFQPATVARAQRRLWREPLR

Nucleotide


Download         Length: 2226 bp        

>NTDB_id=922337 VRB78_RS14865 WP_338487337.1 3367888..3370113(-) (comA) [Pseudomonas trivialis strain P_trivialis_B08_1]
ATGAAGACAGGGATGTTTGCATTGGCGCTGGGGTTGCTGACTCTGCGTGTCTTACCCGCATTGCCAGCGACGGGATGGCT
GCTGGCCATGCTGGTGCTGGCCTTGATGCTGTTGCCGTTTCGCACCTTCGCGCTGGCCTTTTTCCTGTTCGGTTTGAGCT
GGGCGTGCATCAGTGCGCAGTGGGCGCTGAATGACCGATTGACCCCCGCACTGGACGGCCAGACGCGTTGGCTGGAGGGA
CGGGTGGTCGGGTTACCGCAGCAGACATCCACTGGCGTGCGCTTCGAACTGGCCGACAGCCGGTCACGCCACGCCCGCTT
GCCCAGGCGCATCCGGGTGTCCTGGCACGGCGGGCCGACGGTGCGCAGTGGCGAGCGCTGGCGGTTGGCCGTGACCCTGA
AGCGACCGTCCGGCCTGCTCAACTTTCATGGGTTCGATCACGAAGCCTGGCTGTTGGCGCGGCGCATCGGCGCGACCGGT
ACGGTAAAGGACGGCGAGCGTCTGACGCCGGCCCGCAACGCCTGGCGCGATACGCTGCGCCAACGCCTGATGACGGTGGA
TGCCCAGAGCCGCGAAGCGGGGCTCGCCGCGCTGGTGCTGGGCGACGGCTCCGGGCTGGCGGACGAAGACTGGCAAGTGC
TGCAGGACACCGGCACCGTGCACCTGCTGGTGATCTCCGGCCAGCACATTGGCCTGCTGGCGGGGCTGATCTACGGGCTG
ATCGCGTTGCTGGCGCGTTATGGTTGCTGGCCCGCCACTTGGCCGTGGTTGTCCTGGGCCTGCGGCCTGGCGTTTGTTGC
AGCGCTGGGTTACGGCTTGCTGGCGGGGTTCGGCGTGCCGGTGCAGCGGGCCTGCGTCATGGTGGGGCTGGTGCTGCTGT
GGCGGTTGCGTTTTCGCCACCTGGGTGCCTGGTGGCCGTTGCTGCTGGCACTCAACGGTGTACTGGTGCTGGAACCGCTG
GCGAGTCTGCAGCCCGGATTCTGGTTATCGTTCGGTGCGGTTGCGGTGTTGATACTGGCCTTCGGCGGGCGCTTGGGCCC
GTGGCGCCTGTGGCAGGGCTGGACGCGTGCGCAGTGGTTGATCGCCATCGGTCTTTTTCCCCTGTTGTTGATGCTTGATT
TGCCGATCAGCCTGAGTGCTCCCCTTGCCAATCTGGTCGCTGTGCCCTGGATCAGCCTGGTGGTGTTGCCGCTGGCATTG
CTGGGGACCGCCCTGCTGACTGTGCCGCTTGTAGGGGAGGGCCTGCTGTGGTTGGCGGGCGGCGCGCTGGACCTGTTGTT
CCAGGGCCTTGCGCTGCTGGCGGCGCACCTGTCTGCTTGGATACCGGCCGAAGTGCCTCTGGGGTTTTGGCTGGTGAGTC
TGGTCGGCGCGTTGATCGTGCTGCTGCCGGGCGGCGTGCCTTTTCGGCTGTTGGGTTGGCCGATGCTGTTGCTGGCGGTG
TTTCCACCGCGTGAGCTGGTGCCCCATGGGCGGGTGGACGTGGTGCAACTGGACGTCGGCCAGGGGCAGGCGATCATCCT
GCGCACCCGCCATCACACCGTGCTCTACGATGCCGGCCCGCGTTCGCGGGCCACAGACCTGGGCGCGCGGGTGGTGTTGC
CATCGCTGAAAAAACTTGGCATCGCGTCGCTGGATTTGATGCTGATCAGCCACGCCGATGCCGACCATGCCGGCGGGGCG
GCCGCAGTGGCGCGCGGGCTGCCGGTGAGGCGTGTGGTGGGCGGTGAAACTGACGGCTTGCCCGAGTTTCTCGGCACTCA
ACCTTGTATCAGCGGCGAGCGCTGGCAGTGGGACGGTGTGTCATTCGAGCTGTGGCAATGGCCCGGGGCCGTCGACGGTA
ATCCGAAATCTTGCGTGTTGCAGGTGCAGGCCAATGGCGAACGGTTGCTGCTCACCGGCGATATCGATCGTGCCGCCGAG
CGCGCGTTGCTCGACTCGCCGCTGGCGCTGCGCACCGACTGGCTGCAAGCCCCTCACCATGGCAGCCGCAGTTCGTCGTC
CCGGCCTTTTGTGCAGCAGTTGGCGCCAACGTCGGTGCTGATCTCGCGGGGGCGCGGCAATGCATTCGGCCATCCTCACG
CCCAGGTGCTGGAGCGTTACCGCGCAGTGGGCAGCCGGGTGTATGACAGCGCCGAGCAGGGTGCGGTGCGCCTGCAGTTG
GGGGCTTTCCAGCCAGCCACAGTTGCACGCGCGCAACGCCGCCTCTGGCGTGAACCGTTACGCTGA

Domains

Predicted by InterproScan.

Competence protein (Competence)

(198-462)

Domain of unknown function (DUF4131) (DUF4131)

(20-167)

Metallo-beta-lactamase superfamily (Lactamase_B)

(498-670)


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
  comA Pseudomonas stutzeri DSM 10701

59.944

97.031

0.582
  comA Ralstonia pseudosolanacearum GMI1000

34.733

100

0.368