Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   D5S10_RS00990 Genome accession   NZ_CP032456
Coordinates   214662..216155 (+) Length   497 a.a.
NCBI ID   WP_192485562.1    Uniprot ID   -
Organism   Pseudomonas savastanoi strain CAS03     
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 195645..214483 214662..216155 flank 179


Gene organization within MGE regions


Location: 195645..216155
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D5S10_RS00910 (D5S10_01010) - 195645..196268 (+) 624 WP_005782307.1 glycoside hydrolase family 25 protein -
  D5S10_RS28610 (D5S10_01015) - 196558..196775 (-) 218 Protein_184 hypothetical protein -
  D5S10_RS00920 (D5S10_01025) - 196837..196972 (+) 136 Protein_185 transcriptional regulator -
  D5S10_RS00925 (D5S10_01030) - 197120..202858 (-) 5739 WP_046832886.1 hypothetical protein -
  D5S10_RS28615 - 203266..203418 (+) 153 Protein_187 ATP-binding protein -
  D5S10_RS00935 (D5S10_01040) - 203515..203991 (-) 477 WP_005782302.1 hypothetical protein -
  D5S10_RS00940 (D5S10_01050) - 204709..205029 (+) 321 WP_004662327.1 hypothetical protein -
  D5S10_RS28620 - 205056..205505 (-) 450 Protein_190 tyrosine-type recombinase/integrase -
  D5S10_RS00950 (D5S10_01060) - 205547..206431 (+) 885 Protein_191 acetylornithine deacetylase -
  D5S10_RS00955 (D5S10_01065) - 206545..207162 (+) 618 WP_005782295.1 hypothetical protein -
  D5S10_RS00960 (D5S10_01070) - 207229..207913 (-) 685 Protein_193 permease -
  D5S10_RS00965 (D5S10_01075) - 207910..208366 (-) 457 Protein_194 hypothetical protein -
  D5S10_RS00970 (D5S10_01080) - 208368..209060 (-) 693 WP_044295711.1 hypothetical protein -
  D5S10_RS00975 (D5S10_01085) - 209057..212455 (-) 3399 WP_192485561.1 toxin VasX -
  D5S10_RS00980 (D5S10_01090) - 212826..213797 (-) 972 WP_005778479.1 hypothetical protein -
  D5S10_RS00985 (D5S10_01095) - 213941..214483 (-) 543 WP_005778480.1 GNAT family N-acetyltransferase -
  D5S10_RS00990 (D5S10_01100) comM 214662..216155 (+) 1494 WP_192485562.1 YifB family Mg chelatase-like AAA ATPase Machinery gene

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 53039.85 Da        Isoelectric Point: 7.7173

>NTDB_id=315980 D5S10_RS00990 WP_192485562.1 214662..216155(+) (comM) [Pseudomonas savastanoi strain CAS03]
MSLAIVHSRAQVGVEAPAVTVEAHLANGLPALTLVGLAEGAVKESKDRVRSAILNSGLDFPARRITLNLAPADLPKDGGR
FDLAIALGLLAASGQVPLVALQDVECLGELALSGAIRPIQGVLPAALAARAAERTLIIPAVNAEEACLASGLRVIAVNHL
LELVAHFNGRTVIAPYQSSGLLHQPKPYPDLSEVQGQAAAKRALVIAAAGAHNLLFSGPPGTGKTLLASRLPGLLPPLDE
HEALEVAAIQSVASQVPLTSWPQRPFRQPHHSASGPALVGGGSRPQPGEITLAHHGVLFLDELPEFDRRVLEVLREPLES
GHIVISRARDRVRFPARFQLVAAMNPCPCGYLGEPTGRCRCSTEQVQRYRNKLSGPLLDRIDLHLTVAREATALNPDPTT
SENTASAAAVVAQARERQQRRQGCANAFLDLPGLREHCALSSVDERWLETACERLTLSLRSAHRLLKVARTLADLEQVDA
ISRSHLAEALQYRPSNN

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=315980 D5S10_RS00990 WP_192485562.1 214662..216155(+) (comM) [Pseudomonas savastanoi strain CAS03]
ATGTCGCTGGCTATCGTCCATAGTCGTGCCCAGGTCGGGGTGGAAGCCCCGGCGGTTACTGTTGAAGCGCATCTGGCCAA
CGGCCTGCCGGCCCTGACGCTGGTGGGGTTGGCGGAGGGGGCGGTCAAGGAGAGCAAGGACCGGGTGCGCAGTGCCATTC
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

54.545

99.598

0.543
  comM Glaesserella parasuis strain SC1401

53.2

100

0.535
  comM Vibrio campbellii strain DS40M4

53.737

99.598

0.535
  comM Haemophilus influenzae Rd KW20

53

100

0.533
  comM Legionella pneumophila str. Paris

49.307

100

0.501
  comM Legionella pneumophila strain ERS1305867

49.307

100

0.501
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.418

100

0.459

Multiple sequence alignment