Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   PSYTB_RS00695 Genome accession   NZ_CP042804
Coordinates   134411..135904 (+) Length   497 a.a.
NCBI ID   WP_046832716.1    Uniprot ID   -
Organism   Pseudomonas amygdali pv. tabaci str. ATCC 11528     
Function   ssDNA binding (predicted from homology)   
DNA processing

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)
Genomic island 115394..134232 134411..135904 flank 179


Gene organization within MGE regions


Location: 115394..135904
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYTB_RS00605 (PSYTB_00605) - 115394..116017 (+) 624 WP_005782307.1 glycoside hydrolase family 25 protein -
  PSYTB_RS29510 (PSYTB_00610) - 116307..116524 (-) 218 Protein_111 hypothetical protein -
  PSYTB_RS00620 (PSYTB_00620) - 116586..116721 (+) 136 Protein_112 transcriptional regulator -
  PSYTB_RS00625 (PSYTB_00625) - 116869..122607 (-) 5739 WP_046832886.1 hypothetical protein -
  PSYTB_RS29515 - 123015..123167 (+) 153 Protein_114 ATP-binding protein -
  PSYTB_RS00635 (PSYTB_00635) - 123264..123740 (-) 477 WP_005782302.1 hypothetical protein -
  PSYTB_RS00645 (PSYTB_00645) - 124458..124778 (+) 321 WP_004662327.1 hypothetical protein -
  PSYTB_RS29460 - 124805..125254 (-) 450 Protein_117 tyrosine-type recombinase/integrase -
  PSYTB_RS00655 (PSYTB_00655) - 125296..126180 (+) 885 Protein_118 acetylornithine deacetylase -
  PSYTB_RS00660 (PSYTB_00660) - 126294..126911 (+) 618 WP_005782295.1 hypothetical protein -
  PSYTB_RS00665 (PSYTB_00665) - 126978..127662 (-) 685 Protein_120 permease -
  PSYTB_RS00670 (PSYTB_00670) - 127659..128115 (-) 457 Protein_121 hypothetical protein -
  PSYTB_RS00675 (PSYTB_00675) - 128117..128809 (-) 693 WP_044295711.1 hypothetical protein -
  PSYTB_RS00680 (PSYTB_00680) - 128806..132204 (-) 3399 WP_147232436.1 toxin VasX -
  PSYTB_RS00685 (PSYTB_00685) - 132575..133546 (-) 972 WP_005778479.1 hypothetical protein -
  PSYTB_RS00690 (PSYTB_00690) - 133690..134232 (-) 543 WP_005778480.1 GNAT family N-acetyltransferase -
  PSYTB_RS00695 (PSYTB_00695) comM 134411..135904 (+) 1494 WP_046832716.1 YifB family Mg chelatase-like AAA ATPase Machinery gene

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 53065.89 Da        Isoelectric Point: 7.7173

>NTDB_id=378642 PSYTB_RS00695 WP_046832716.1 134411..135904(+) (comM) [Pseudomonas amygdali pv. tabaci str. ATCC 11528]
MSLAIVHSRAQVGVEAPAVTVEAHLANGLPALTLVGLPEGAVKESKDRVRSAILNSGLDFPARRITLNLAPADLPKDGGR
FDLAIALGLLAASGQVPLVALQDVECLGELALSGAIRPIQGVLPAALAARAAERTLIIPAVNAEEACLASGLRVIAVNHL
LELVAHFNGRTVIAPYQSSGLLHQPKPYPDLSEVQGQAAAKRALVIAAAGAHNLLFSGPPGTGKTLLASRLPGLLPPLDE
HEALEVAAIQSVASQVPLTSWPQRPFRQPHHSASGPALVGGGSRPQPGEITLAHHGVLFLDELPEFDRRVLEVLREPLES
GHIVISRARDRVRFPARFQLVAAMNPCPCGYLGEPTGRCRCSTEQVQRYRNKLSGPLLDRIDLHLTVAREATALNPDPTT
SENTASAAAVVAQARERQQRRQGCANAFLDLPGLREHCALSSVDERWLETACERLTLSLRSAHRLLKVARTLADLEQVDA
ISRSHLAEALQYRPSNN

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=378642 PSYTB_RS00695 WP_046832716.1 134411..135904(+) (comM) [Pseudomonas amygdali pv. tabaci str. ATCC 11528]
ATGTCGCTGGCTATCGTCCATAGTCGTGCCCAGGTCGGGGTGGAAGCCCCGGCGGTTACTGTTGAAGCGCATCTGGCCAA
CGGCCTGCCGGCCCTGACGCTGGTGGGGTTGCCGGAGGGGGCGGTCAAGGAGAGCAAGGACCGGGTGCGCAGTGCCATTC
TCAATTCCGGGCTGGATTTTCCGGCGCGGCGGATCACGCTCAACCTTGCGCCGGCTGATTTGCCCAAGGATGGCGGGCGG
TTCGATCTGGCGATTGCGCTGGGTTTGCTGGCTGCCAGCGGGCAGGTGCCGCTGGTTGCGTTGCAGGATGTTGAATGCCT
GGGCGAACTGGCGCTGTCGGGGGCGATTCGGCCGATTCAGGGTGTGCTGCCTGCTGCGCTGGCGGCGCGTGCGGCGGAGC
GGACGCTGATCATTCCGGCGGTGAACGCCGAGGAAGCGTGTCTGGCCTCGGGGCTGCGGGTGATTGCGGTGAATCACTTG
CTGGAGCTGGTCGCGCATTTCAACGGGCGCACGGTGATTGCGCCGTATCAGTCCAGTGGTCTGCTGCATCAGCCCAAGCC
GTATCCGGATTTAAGCGAAGTGCAGGGTCAGGCCGCTGCGAAGCGTGCCTTGGTGATCGCCGCTGCCGGGGCGCACAACC
TGCTGTTCAGTGGGCCGCCTGGCACCGGCAAGACGCTGCTCGCCAGCCGCCTGCCGGGTTTGTTGCCACCGCTGGACGAG
CACGAAGCGCTGGAGGTGGCGGCGATTCAGTCGGTCGCCAGTCAGGTGCCGCTGACTAGTTGGCCGCAGCGGCCGTTTCG
CCAGCCACATCACTCGGCGTCCGGGCCTGCGCTGGTGGGCGGTGGCAGTCGTCCGCAACCTGGCGAGATCACGTTGGCGC
ATCACGGCGTTTTATTTCTTGATGAACTGCCGGAGTTCGATCGCCGCGTGCTGGAGGTTTTGCGTGAGCCGCTGGAGTCC
GGGCATATCGTGATTTCCCGTGCGCGGGATCGCGTGCGCTTTCCGGCGCGGTTCCAACTGGTGGCAGCGATGAACCCATG
TCCCTGTGGATATCTTGGTGAGCCGACCGGGCGCTGCCGTTGCTCCACCGAGCAGGTGCAGCGATATCGCAACAAGCTGT
CCGGCCCGCTGCTGGACCGGATCGATCTGCACTTGACCGTCGCCCGCGAAGCCACCGCCCTCAACCCTGACCCGACCACC
AGTGAGAACACTGCAAGCGCGGCAGCGGTGGTTGCGCAGGCCAGAGAACGGCAGCAACGTCGTCAGGGCTGTGCCAATGC
CTTTCTCGACCTACCGGGGCTGCGCGAGCACTGCGCGCTGTCCAGTGTCGATGAACGCTGGCTGGAGACGGCCTGCGAGC
GCCTGACTCTCTCATTACGTTCGGCGCATCGCCTGCTGAAAGTGGCACGGACGTTGGCGGATCTGGAGCAAGTGGACGCG
ATCAGCCGCAGTCATCTGGCCGAGGCGTTGCAATATCGGCCTTCGAATAATTGA

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)

(402-493)


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 cholerae strain A1552

54.747

99.598

0.545
  comM Glaesserella parasuis strain SC1401

53.4

100

0.537
  comM Vibrio campbellii strain DS40M4

53.939

99.598

0.537
  comM Haemophilus influenzae Rd KW20

53.2

100

0.535
  comM Legionella pneumophila str. Paris

49.109

100

0.499
  comM Legionella pneumophila strain ERS1305867

49.109

100

0.499
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.618

100

0.461

Multiple sequence alignment