Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   PDMSB3_RS01640 Genome accession   NZ_LR699553
Coordinates   348119..349708 (-) Length   529 a.a.
NCBI ID   WP_165184359.1    Uniprot ID   A0A5Q4YUB2
Organism   Paraburkholderia dioscoreae strain Msb3     
Function   DNA uptake (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 343119..354708
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PDMSB3_RS01625 (PDMSB3_0344) - 344959..346311 (+) 1353 WP_007179491.1 sigma-54 dependent transcriptional regulator -
  PDMSB3_RS01630 (PDMSB3_0345) - 346398..346928 (-) 531 WP_007179490.1 TlpA disulfide reductase family protein -
  PDMSB3_RS01635 (PDMSB3_0346) - 347101..347775 (+) 675 WP_007179489.1 hypothetical protein -
  PDMSB3_RS01640 (PDMSB3_0348) comM 348119..349708 (-) 1590 WP_165184359.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  PDMSB3_RS01645 (PDMSB3_0349) - 349830..350084 (-) 255 WP_007179477.1 accessory factor UbiK family protein -
  PDMSB3_RS01650 (PDMSB3_0351) - 350494..350832 (+) 339 WP_006048089.1 P-II family nitrogen regulator -
  PDMSB3_RS01655 (PDMSB3_0352) - 350877..352379 (+) 1503 WP_007179476.1 ammonium transporter -
  PDMSB3_RS01660 (PDMSB3_0353) gshA 352616..353905 (+) 1290 WP_007179475.1 glutamate--cysteine ligase -

Sequence

Protein


Download         Length: 529 a.a.        Molecular weight: 55377.25 Da        Isoelectric Point: 7.6375

>NTDB_id=1129334 PDMSB3_RS01640 WP_165184359.1 348119..349708(-) (comM) [Paraburkholderia dioscoreae strain Msb3]
MSLAVVRSRAPAAGRAPEVTVEVHLANGLPSFSIVGLPDLEVRESRERVRAALQNCNFDFPVRRITVNLAPADLPKESGR
FDLPIALGILAASGQIPAESLLHREFAGELSLTGALRPMRGAFAMACGTARSGVAHGGASSGISGELAASEPAAHSAPQL
YLPAASAAEAALVPGVDVYGAADLPSLCAHLADAPDGRLYPVAAPDPAAGASAAVPDMGDVIGQRGARRALEVAAAGGHH
VLLVGPPGAGKSMLAARLPGLLPPMTDDEALSSAALLSASRAGFTPSQWRRRPFRAPHHSSSAAALVGGRNPPQPGEITL
AHLGVLFLDELPEFDRDVLETLREPLEAGRITISRAALQADFPAACQLIAAMNPCPCGWRGDPQGRCRCTPEIAARYLRK
LSGPLLDRIDIQLEIPALAPAELSARSTTTGEPSAAIAVRVNRARERQLSRQGKTNRELGGREVDEVCRPDAAGEMLLRE
AGERFGWSARAYYRVLKVARTIADLAGTPMPSAAQIGEAIQYRRAFGSL

Nucleotide


Download         Length: 1590 bp        

>NTDB_id=1129334 PDMSB3_RS01640 WP_165184359.1 348119..349708(-) (comM) [Paraburkholderia dioscoreae strain Msb3]
ATGTCGCTTGCCGTGGTGCGCAGTCGCGCGCCGGCCGCTGGCCGCGCGCCCGAAGTAACCGTCGAGGTCCACCTCGCGAA
CGGATTACCCTCTTTTTCGATCGTCGGGCTGCCCGATCTGGAAGTGCGCGAAAGCCGCGAGCGGGTGCGAGCGGCGCTGC
AGAACTGCAATTTCGACTTCCCCGTCCGGCGCATTACCGTCAATCTCGCTCCCGCCGATTTGCCGAAGGAATCCGGCCGC
TTCGATCTGCCGATCGCTTTGGGCATTCTCGCGGCGAGCGGCCAGATTCCCGCCGAGTCCTTGCTGCATCGCGAATTCGC
CGGCGAGCTGTCTTTGACCGGCGCGCTCAGGCCGATGCGCGGCGCTTTCGCCATGGCCTGCGGAACGGCACGCAGCGGTG
TCGCTCACGGCGGCGCATCTTCTGGAATTTCAGGCGAGCTCGCTGCAAGCGAGCCAGCCGCACACTCCGCTCCACAGCTC
TACCTGCCCGCCGCGAGCGCGGCGGAAGCGGCGCTCGTGCCCGGCGTCGACGTCTACGGCGCCGCCGATCTTCCCTCACT
GTGCGCTCACCTGGCGGATGCGCCTGACGGGCGGCTCTATCCGGTTGCCGCGCCGGACCCCGCCGCCGGCGCAAGCGCCG
CCGTTCCGGATATGGGCGATGTGATCGGTCAGCGCGGCGCGCGGCGGGCACTTGAAGTCGCTGCGGCGGGCGGCCATCAC
GTATTGCTGGTCGGGCCGCCCGGCGCGGGCAAATCGATGCTCGCCGCCCGCCTGCCCGGCCTCCTGCCACCCATGACCGA
CGACGAAGCGCTTAGCTCCGCCGCCTTGCTGTCCGCCAGCCGGGCCGGTTTCACGCCCTCGCAGTGGCGGCGGCGGCCGT
TTCGCGCTCCGCATCATTCGTCCAGCGCGGCGGCGCTGGTGGGCGGACGCAATCCGCCGCAGCCCGGTGAGATTACGCTC
GCGCATCTGGGCGTGCTATTTCTCGACGAGCTGCCCGAATTCGATCGGGATGTGCTGGAGACGCTGCGTGAGCCGCTTGA
AGCCGGTCGCATCACGATTTCACGCGCCGCCCTGCAGGCGGATTTCCCGGCTGCGTGCCAATTGATCGCCGCCATGAACC
CGTGTCCATGCGGCTGGCGCGGTGATCCCCAAGGCCGCTGCCGCTGCACACCAGAGATCGCGGCGCGCTACCTGCGCAAG
CTTTCCGGGCCGCTACTCGACCGGATTGACATCCAACTCGAGATTCCCGCCCTCGCGCCCGCGGAACTGTCTGCCCGTTC
GACAACCACTGGGGAGCCGAGCGCGGCCATTGCCGTGCGTGTGAATCGCGCTCGCGAGCGTCAATTGAGCCGTCAGGGCA
AGACCAACCGTGAATTGGGGGGACGCGAAGTGGACGAGGTGTGCCGCCCCGACGCCGCGGGCGAGATGCTATTGCGTGAA
GCTGGAGAGCGTTTCGGCTGGTCGGCGCGCGCGTACTACCGGGTTCTCAAGGTGGCGCGCACTATCGCCGACCTCGCCGG
CACGCCCATGCCGAGTGCCGCGCAGATCGGCGAAGCGATCCAGTATCGCCGCGCTTTTGGCTCGCTATGA

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(217-421)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(431-523)

Subunit ChlI of Mg-chelatase (ChlI)

(21-134)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A5Q4YUB2

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

49.143

99.244

0.488
  comM Vibrio cholerae strain A1552

48.473

99.055

0.48
  comM Legionella pneumophila str. Paris

47.148

99.433

0.469
  comM Legionella pneumophila strain ERS1305867

47.148

99.433

0.469
  comM Haemophilus influenzae Rd KW20

46.374

99.055

0.459
  comM Glaesserella parasuis strain SC1401

45.611

99.055

0.452
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

42.802

97.164

0.416

Multiple sequence alignment