Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   RHM59_RS17780 Genome accession   NZ_CP133783
Coordinates   4000309..4001802 (-) Length   497 a.a.
NCBI ID   WP_322166637.1    Uniprot ID   -
Organism   Pseudomonas sp. MH10     
Function   DNA uptake (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)
ICE 3991443..4007053 4000309..4001802 within 0


Gene organization within MGE regions


Location: 3991443..4007053
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHM59_RS17755 (RHM59_17755) rep 3991443..3993452 (-) 2010 WP_322285128.1 DNA helicase Rep -
  RHM59_RS17760 (RHM59_17760) - 3993656..3995338 (+) 1683 WP_322285129.1 bifunctional diguanylate cyclase/phosphodiesterase -
  RHM59_RS17765 (RHM59_17765) - 3995573..3996970 (-) 1398 WP_322285130.1 NorM family multidrug efflux MATE transporter -
  RHM59_RS17770 (RHM59_17770) - 3997123..3998043 (+) 921 WP_322166638.1 LysR substrate-binding domain-containing protein -
  RHM59_RS17775 (RHM59_17775) - 3998238..4000214 (+) 1977 WP_322285131.1 methyl-accepting chemotaxis protein -
  RHM59_RS17780 (RHM59_17780) comM 4000309..4001802 (-) 1494 WP_322166637.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  RHM59_RS17785 (RHM59_17785) - 4001960..4002220 (-) 261 WP_322166636.1 accessory factor UbiK family protein -
  RHM59_RS17790 (RHM59_17790) glnK 4002642..4002980 (+) 339 WP_002555808.1 P-II family nitrogen regulator -
  RHM59_RS17795 (RHM59_17795) - 4003016..4004362 (+) 1347 WP_322166635.1 ammonium transporter -
  RHM59_RS17800 (RHM59_17800) - 4004539..4004970 (+) 432 WP_322166634.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  RHM59_RS17805 (RHM59_17805) sutA 4005064..4005393 (+) 330 WP_322166633.1 transcriptional regulator SutA -
  RHM59_RS17810 (RHM59_17810) - 4005466..4006158 (-) 693 WP_322285132.1 HAD family hydrolase -
  RHM59_RS17815 (RHM59_17815) xerC 4006151..4007053 (-) 903 WP_322166631.1 tyrosine recombinase XerC -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 52981.87 Da        Isoelectric Point: 7.6901

>NTDB_id=876752 RHM59_RS17780 WP_322166637.1 4000309..4001802(-) (comM) [Pseudomonas sp. MH10]
MSLAIVLSRAQVGVEAPAVTVECHLANGLPALTLVGLPEGAVRESKDRVRSAILNSGFQFPARRITLNLAPADLPKDGGR
FDLAIALGLLAASTQLPAFALQDVECLGELALSGGIRPVQGVLPAALAARAAGHTLIVPTANAEEACLASGLRVIAVNDL
RQLVAHFNGQAPIIPYTSSGLLHQSKPYPDLSEVQGQTAAKRALLVAAAGAHNLLFSGPPGTGKTLLASRLPGLLPPLDE
HEALEVAAIQSVASQTPLTSWPLRPFRQPHHSASGAALVGGGSRPQPGEITLAHHGVLFLDELPEFDRKVLEVLREPLES
GHIVIARARDRVRFPARFQLVAAMNPCPCGYLGEPSGRCRCSTEQIQRYRNKLSGPLLDRIDLHLTVAREATALNPGPQT
GDDTATAAALVAQARDRQQQRQGCPNAFLDLPGLRKHCPLSIEDETWLETACERLTLSLRAAHRLLKVARTLADLEQVDG
IVRHHLAEALQYRPSGY

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=876752 RHM59_RS17780 WP_322166637.1 4000309..4001802(-) (comM) [Pseudomonas sp. MH10]
ATGTCTCTCGCTATCGTTCTCAGCCGCGCCCAAGTAGGCGTGGAAGCACCTGCCGTTACTGTCGAATGTCATTTGGCCAA
CGGCTTGCCGGCGCTAACGCTGGTGGGCCTGCCCGAGGGAGCGGTCAGGGAAAGTAAGGACCGGGTACGCAGCGCCATTT
TGAATTCAGGTTTTCAATTTCCGGCACGGCGGATCACGCTCAATCTCGCCCCGGCAGATTTGCCCAAGGACGGTGGACGC
TTCGACCTTGCCATTGCATTGGGACTGCTGGCCGCCAGCACCCAATTACCTGCGTTTGCACTCCAGGACGTGGAGTGTTT
GGGTGAATTGGCATTGTCAGGCGGCATTCGGCCAGTTCAGGGCGTGTTGCCTGCGGCGTTGGCAGCACGGGCGGCAGGCC
ATACGCTGATCGTGCCTACGGCGAACGCTGAAGAAGCGTGTTTGGCGTCCGGTCTGAGGGTCATCGCCGTTAATGACCTG
CGTCAGCTGGTGGCGCACTTCAACGGTCAGGCGCCAATCATCCCCTATACATCCAGCGGCCTGTTGCACCAGAGCAAGCC
ATACCCGGACTTAAGCGAAGTCCAAGGCCAAACTGCGGCTAAACGTGCGCTGTTGGTGGCGGCGGCCGGGGCGCACAATC
TGCTTTTCAGCGGCCCGCCAGGCACCGGCAAAACACTGCTCGCCAGCCGCCTGCCCGGTTTGTTGCCGCCGCTGGATGAA
CATGAAGCGCTGGAGGTTGCGGCGATTCAGTCGGTTGCCAGCCAAACACCTCTCACGAGTTGGCCGCTGCGGCCTTTCCG
GCAACCGCATCACTCAGCCTCCGGTGCGGCGCTGGTCGGTGGCGGCAGTCGGCCTCAGCCGGGGGAAATTACCCTCGCTC
ACCACGGCGTGCTATTTCTCGATGAGCTGCCTGAGTTCGACCGCAAGGTGCTGGAGGTGCTGCGTGAGCCGCTGGAGTCT
GGCCACATCGTCATCGCCCGCGCCCGTGACCGAGTGCGCTTTCCGGCGCGTTTTCAGTTAGTCGCCGCGATGAACCCGTG
TCCGTGCGGTTATCTCGGAGAGCCCAGCGGTCGCTGTCGGTGTTCGACCGAGCAGATTCAGCGCTATCGCAACAAATTGT
CCGGCCCACTGCTGGACCGCATCGACTTGCACCTGACCGTCGCCCGTGAAGCCACTGCGCTCAACCCCGGCCCACAAACC
GGCGACGACACCGCCACAGCCGCCGCGCTCGTCGCCCAAGCCCGCGACCGGCAACAACAGCGCCAAGGTTGCCCCAACGC
CTTCCTCGACTTGCCAGGACTGCGCAAGCATTGCCCCTTATCGATTGAAGATGAGACGTGGCTGGAAACCGCCTGCGAGC
GCCTGACGCTTTCACTTAGGGCCGCGCACCGCTTGCTAAAAGTCGCACGGACGTTGGCAGACTTGGAGCAGGTCGATGGG
ATTGTCCGTCATCATCTGGCGGAAGCGTTGCAGTACCGGCCTTCGGGTTATTGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-390)

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

55.152

99.598

0.549
  comM Vibrio cholerae strain A1552

54.949

99.598

0.547
  comM Haemophilus influenzae Rd KW20

53.293

100

0.537
  comM Glaesserella parasuis strain SC1401

53

100

0.533
  comM Legionella pneumophila str. Paris

48.814

100

0.497
  comM Legionella pneumophila strain ERS1305867

48.814

100

0.497
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.437

100

0.461