Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   RAM80_RS18220 Genome accession   NZ_CP133165
Coordinates   3897649..3899142 (-) Length   497 a.a.
NCBI ID   WP_416421859.1    Uniprot ID   -
Organism   Pseudomonas sp. App30     
Function   DNA uptake (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3892649..3904142
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAM80_RS18200 (RAM80_18170) - 3892958..3894394 (-) 1437 WP_416421854.1 mechanosensitive ion channel family protein -
  RAM80_RS18205 (RAM80_18175) - 3894539..3896539 (+) 2001 WP_416421855.1 FUSC family protein -
  RAM80_RS18210 (RAM80_18180) - 3896532..3897107 (-) 576 WP_416421856.1 PIN domain-containing protein -
  RAM80_RS18215 (RAM80_18185) - 3897104..3897571 (-) 468 WP_416421858.1 helix-turn-helix domain-containing protein -
  RAM80_RS18220 (RAM80_18190) comM 3897649..3899142 (-) 1494 WP_416421859.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  RAM80_RS18225 (RAM80_18195) - 3899449..3899700 (+) 252 WP_416421860.1 type II toxin-antitoxin system Phd/YefM family antitoxin -
  RAM80_RS18230 (RAM80_18200) - 3899710..3900075 (+) 366 WP_416421861.1 type II toxin-antitoxin system RelE/ParE family toxin -
  RAM80_RS18235 (RAM80_18205) - 3900088..3900999 (-) 912 WP_416421862.1 LysR family transcriptional regulator -
  RAM80_RS18240 (RAM80_18210) - 3901129..3901389 (-) 261 WP_416421863.1 accessory factor UbiK family protein -
  RAM80_RS18245 (RAM80_18215) glnK 3901802..3902140 (+) 339 WP_002555808.1 P-II family nitrogen regulator -
  RAM80_RS18250 (RAM80_18220) - 3902176..3903513 (+) 1338 WP_416421864.1 ammonium transporter -
  RAM80_RS18255 (RAM80_18225) - 3903714..3904139 (+) 426 WP_416421865.1 secondary thiamine-phosphate synthase enzyme YjbQ -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 52860.61 Da        Isoelectric Point: 7.4913

>NTDB_id=872259 RAM80_RS18220 WP_416421859.1 3897649..3899142(-) (comM) [Pseudomonas sp. App30]
MSLAIVHSRAQVGVGAPAVTVETHLANGLPSLTLVGLPEASVKESKDRVRSAIVNSNLNFPARRITQNLAPADLPKDGGR
YDLAIALGILAASGQFPTAALQDVECLGELALSGAIRPVQGVLPAALAAREAGRALVVPCENAEEASLASGLVVIAASNL
LELVCHFNDQQRISPFSSNGLILLDRPYPDLSEVQGQPAAKRALLVAAAGAHNLLFSGPPGTGKTLLASRLPGLLPPLDE
REALEVAAIQSVASLAPLKHWPQRPFRHPHHSASGAALVGGGSRPQPGEITLAHHGVLFLDELPEFDRKVLEVLREPLES
GEIVIARARDKIRFPARFQLVAAMNPCPCGYLGDPSSRCSCSTDQIARYRNKLSGPLLDRIDLHVTVARETTALNPTPQP
GDDTAHAAARVAAARDRQLRRQGCANAFLDLPGLKAHCKLSTADEQWLETACERLTLSLRAAHRLLKVARTLADLEEMEL
VGRGHVAEALQYRPSGQ

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=872259 RAM80_RS18220 WP_416421859.1 3897649..3899142(-) (comM) [Pseudomonas sp. App30]
ATGTCCCTAGCCATCGTCCACAGCCGCGCCCAGGTCGGGGTCGGCGCGCCGGCCGTCACGGTGGAAACCCACCTGGCCAA
CGGCCTGCCTTCGCTGACGCTGGTGGGCCTGCCGGAAGCCTCGGTCAAGGAGAGCAAGGACCGGGTGCGCAGCGCCATCG
TCAACTCGAACCTGAATTTCCCCGCGCGGCGCATCACCCAGAACCTGGCGCCGGCGGACCTGCCCAAGGACGGGGGCCGC
TACGACCTGGCCATCGCCCTGGGCATTCTCGCCGCCAGCGGGCAGTTCCCCACGGCGGCGCTGCAGGATGTGGAATGCCT
GGGCGAGCTGGCGCTTTCGGGGGCGATACGGCCGGTGCAGGGCGTGCTGCCTGCCGCGCTCGCTGCCCGCGAGGCCGGGC
GGGCGCTGGTGGTGCCCTGCGAGAATGCCGAGGAGGCCAGCCTGGCGTCAGGGCTGGTGGTCATTGCCGCCAGCAACCTG
CTGGAGCTGGTCTGCCATTTCAACGACCAGCAGCGCATCAGCCCCTTCAGCTCCAACGGCCTGATCCTGCTGGACCGCCC
CTACCCCGACCTCAGCGAAGTGCAGGGCCAGCCGGCGGCCAAGCGTGCCCTGCTGGTAGCCGCAGCCGGGGCGCACAACC
TGCTGTTCAGCGGCCCGCCCGGCACCGGCAAGACCCTGCTCGCCAGCCGCTTGCCCGGGCTGCTGCCGCCGCTGGATGAG
CGCGAGGCGCTGGAGGTTGCGGCGATACAGTCGGTGGCCAGCCTGGCGCCGTTGAAGCACTGGCCGCAGCGGCCGTTTCG
CCATCCCCATCACTCCGCTTCCGGGGCGGCGCTGGTCGGTGGTGGCAGCCGGCCGCAGCCAGGGGAGATCACCCTCGCCC
ACCACGGCGTGCTGTTCCTCGACGAACTGCCCGAGTTCGACCGCAAGGTGCTGGAGGTGCTGCGCGAGCCGCTGGAGTCT
GGCGAAATCGTCATCGCCCGGGCCCGCGACAAGATCCGCTTCCCCGCGCGCTTCCAGCTGGTGGCCGCCATGAACCCCTG
CCCCTGTGGATATCTCGGCGACCCCAGCAGCCGCTGCAGCTGCAGCACCGACCAGATCGCCCGCTACCGCAACAAACTCT
CCGGCCCCTTGCTGGACCGCATCGACCTGCACGTCACCGTCGCCCGCGAGACCACCGCCCTCAACCCAACCCCACAGCCC
GGCGACGACACCGCCCACGCCGCCGCACGCGTGGCCGCCGCCCGCGACCGGCAACTGCGGCGCCAGGGCTGCGCCAATGC
CTTCCTCGACCTGCCGGGGCTGAAGGCACACTGCAAGTTATCCACAGCCGATGAGCAATGGCTGGAAACCGCCTGCGAGC
GGCTGACGCTGTCACTGCGGGCGGCACATCGGCTGCTGAAGGTGGCGCGTACCTTGGCGGACCTGGAAGAGATGGAGCTG
GTTGGCCGGGGGCATGTGGCGGAGGCGTTGCAATATCGGCCATCGGGTCAGTAA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-391)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(403-493)


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
  comM Vibrio campbellii strain DS40M4

55.758

99.598

0.555
  comM Vibrio cholerae strain A1552

55.758

99.598

0.555
  comM Glaesserella parasuis strain SC1401

54.291

100

0.547
  comM Haemophilus influenzae Rd KW20

53.2

100

0.535
  comM Legionella pneumophila str. Paris

49.098

100

0.493
  comM Legionella pneumophila strain ERS1305867

49.098

100

0.493
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.328

100

0.459