Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   R6U48_RS05170 Genome accession   NZ_CP137562
Coordinates   1099494..1100987 (-) Length   497 a.a.
NCBI ID   WP_023110533.1    Uniprot ID   -
Organism   Pseudomonas aeruginosa strain CPA0087     
Function   require for natural transformation (predicted from homology)   
Unclear

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 1077724..1112073 1099494..1100987 within 0


Gene organization within MGE regions


Location: 1077724..1112073
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R6U48_RS05090 (R6U48_05090) - 1080134..1080325 (+) 192 WP_003096523.1 YnbE family lipoprotein -
  R6U48_RS05095 (R6U48_05095) - 1080338..1080682 (+) 345 WP_003098276.1 YdbL family protein -
  R6U48_RS05100 (R6U48_05100) dadA 1081039..1082337 (+) 1299 WP_003098274.1 D-amino acid dehydrogenase -
  R6U48_RS05105 (R6U48_05105) - 1082312..1082665 (+) 354 WP_003098273.1 RidA family protein -
  R6U48_RS05110 (R6U48_05110) alr 1082756..1083829 (+) 1074 WP_003096515.1 alanine racemase -
  R6U48_RS05115 (R6U48_05115) - 1083980..1084528 (+) 549 WP_003096513.1 cupin domain-containing protein -
  R6U48_RS05120 (R6U48_05120) - 1084732..1085160 (+) 429 WP_003096511.1 cytochrome c5 family protein -
  R6U48_RS05125 (R6U48_05125) - 1085370..1087229 (+) 1860 WP_078451963.1 acetyl-CoA hydrolase/transferase C-terminal domain-containing protein -
  R6U48_RS05130 (R6U48_05130) - 1087237..1087809 (-) 573 WP_003096508.1 xanthine phosphoribosyltransferase -
  R6U48_RS05135 (R6U48_05135) - 1087973..1089691 (-) 1719 WP_003098265.1 thiamine pyrophosphate-dependent enzyme -
  R6U48_RS05140 (R6U48_05140) rep 1089825..1091834 (-) 2010 WP_003110454.1 DNA helicase Rep -
  R6U48_RS05145 (R6U48_05145) - 1092022..1093698 (+) 1677 WP_003121292.1 bifunctional diguanylate cyclase/phosphodiesterase -
  R6U48_RS05150 (R6U48_05150) - 1093610..1095076 (-) 1467 WP_016254044.1 NorM family multidrug efflux MATE transporter -
  R6U48_RS05155 (R6U48_05155) - 1095225..1096142 (+) 918 WP_003098255.1 LysR substrate-binding domain-containing protein -
  R6U48_RS05160 (R6U48_05160) pchP 1096293..1097342 (+) 1050 WP_031631470.1 phosphorylcholine phosphatase -
  R6U48_RS05165 (R6U48_05165) betT 1097385..1099369 (-) 1985 Protein_1016 choline BCCT transporter BetT -
  R6U48_RS05170 (R6U48_05170) comM 1099494..1100987 (-) 1494 WP_023110533.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  R6U48_RS05175 (R6U48_05175) - 1101028..1101288 (-) 261 WP_003096478.1 accessory factor UbiK family protein -
  R6U48_RS05180 (R6U48_05180) glnK 1101728..1102066 (+) 339 WP_003096476.1 P-II family nitrogen regulator -
  R6U48_RS05185 (R6U48_05185) - 1102106..1103434 (+) 1329 WP_003098243.1 ammonium transporter -
  R6U48_RS05190 (R6U48_05190) - 1103694..1104119 (+) 426 WP_003096441.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  R6U48_RS05195 (R6U48_05195) sutA 1104197..1104514 (+) 318 WP_003098240.1 transcriptional regulator SutA -
  R6U48_RS05200 (R6U48_05200) - 1104938..1105852 (+) 915 WP_031631468.1 fimbrial protein -
  R6U48_RS05205 (R6U48_05205) - 1105877..1107253 (-) 1377 WP_003098233.1 PLP-dependent aminotransferase family protein -
  R6U48_RS05210 (R6U48_05210) - 1107416..1108585 (+) 1170 WP_003118057.1 MFS transporter -
  R6U48_RS05215 (R6U48_05215) - 1108615..1109313 (-) 699 WP_003118056.1 HAD family hydrolase -
  R6U48_RS05220 (R6U48_05220) xerC 1109310..1110221 (-) 912 WP_003114345.1 tyrosine recombinase XerC -
  R6U48_RS05225 (R6U48_05225) - 1110241..1110942 (-) 702 WP_003096433.1 DUF484 family protein -
  R6U48_RS05230 (R6U48_05230) dapF 1110973..1111803 (-) 831 WP_003114344.1 diaminopimelate epimerase -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 53055.02 Da        Isoelectric Point: 7.9584

>NTDB_id=899144 R6U48_RS05170 WP_023110533.1 1099494..1100987(-) (comM) [Pseudomonas aeruginosa strain CPA0087]
MSLAIVHSRAQVGVEAPCVSVEAHLANGLPSLTLVGLPETAVRESKDRVRSALLNAGFDFPARRITLNLAPADLPKDGGR
FDLAIALGILAASGQLPGTALDGLECLGELALSGAIRPVRGVLPAALAARDARRVLVVPKENAEEASLASGLTVFAVDHL
LEIAGHLSGQAPLPPYQARGLLRAPFPYPDLAEVQGQAAAKRALLVAAAGAHNLLLSGPPGTGKTLLASRLPGLLPALDE
DEALEVAAIHSVASHVPLKHWPQRPFRQPHHSASAPALVGGGSRPQPGEITLAHQGVLFLDELPEFERKVLEVLREPLES
GEIVIARANGRVRFPARFQLVAAMNPCPCGYLGDPSGRCRCTPEQVQRYRGKLSGPLLDRIDLHVSVLRESTSLQPGHGE
TATAEVSERVGAARQRQLARQGCANAHLDLQAMHRNCALAEADRRWLEAAGERLELSLRALHRILKVARTLADLERIDAI
ERRHLAEALQYRAMTST

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=899144 R6U48_RS05170 WP_023110533.1 1099494..1100987(-) (comM) [Pseudomonas aeruginosa strain CPA0087]
ATGTCCCTGGCGATTGTCCACAGCCGAGCCCAGGTCGGCGTCGAAGCCCCCTGCGTCAGCGTCGAGGCGCACCTGGCCAA
CGGCCTGCCTTCGCTGACCCTGGTCGGCCTGCCGGAAACCGCGGTGCGCGAGAGCAAGGACCGCGTGCGCAGCGCCCTGC
TCAATGCCGGTTTCGACTTCCCCGCGCGGCGCATCACCCTCAACCTCGCCCCCGCCGACCTACCCAAGGACGGCGGTCGC
TTCGACCTGGCCATCGCACTCGGCATCCTCGCCGCCAGCGGCCAGTTGCCCGGCACCGCCCTCGACGGCCTGGAGTGCCT
CGGCGAACTGGCCCTGTCCGGGGCGATCCGGCCAGTGCGAGGCGTATTGCCGGCCGCGCTGGCGGCGCGCGACGCAAGGC
GCGTTCTGGTGGTACCGAAGGAAAATGCCGAAGAGGCCAGCCTGGCCAGCGGGCTGACGGTGTTCGCCGTGGACCACCTG
CTGGAGATCGCCGGACACCTCTCCGGCCAGGCCCCGCTGCCGCCCTACCAGGCCCGCGGCCTGCTCCGCGCGCCCTTCCC
TTATCCAGACCTGGCCGAGGTCCAGGGCCAGGCCGCCGCCAAGCGCGCCCTGCTGGTGGCCGCCGCCGGCGCGCACAACC
TGTTGCTCAGCGGCCCGCCGGGCACCGGCAAGACCCTCCTGGCCAGCCGCCTGCCCGGCCTGCTGCCGGCGCTCGACGAG
GACGAAGCCCTGGAGGTCGCGGCGATCCATTCGGTGGCCAGCCACGTCCCCCTCAAGCACTGGCCGCAGCGACCGTTCCG
CCAGCCGCACCACTCCGCCTCCGCGCCGGCCCTGGTCGGCGGCGGCAGCCGCCCGCAGCCGGGCGAGATCACCCTGGCGC
ACCAGGGCGTGCTGTTCCTCGACGAACTGCCGGAGTTCGAGCGCAAGGTCCTGGAGGTCCTGCGCGAGCCGCTGGAAAGC
GGCGAGATCGTCATTGCCCGGGCCAACGGCCGGGTACGTTTCCCGGCGCGCTTCCAACTGGTGGCGGCGATGAATCCCTG
TCCCTGTGGCTACCTCGGCGATCCCAGTGGCCGCTGCCGCTGCACCCCGGAACAGGTCCAGCGCTACCGGGGCAAGCTGT
CCGGACCGCTGCTCGATCGCATCGACCTGCACGTCAGCGTGCTCCGCGAAAGCACCAGCCTGCAGCCAGGACACGGCGAA
ACCGCTACCGCCGAGGTCAGCGAACGGGTGGGCGCCGCACGGCAACGGCAACTGGCCCGCCAGGGCTGCGCCAATGCCCA
TCTCGATCTCCAGGCGATGCACCGCAATTGTGCACTCGCCGAAGCGGACCGCCGCTGGCTGGAGGCTGCCGGAGAGCGCC
TGGAACTTTCCTTGCGCGCCTTGCATCGCATACTCAAGGTGGCCCGGACGCTGGCCGACCTGGAGCGCATCGATGCCATC
GAACGCCGGCACCTGGCGGAAGCCCTGCAGTATCGGGCAATGACCTCCACGTGA

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-390)

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(402-492)


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 Haemophilus influenzae Rd KW20

55.186

100

0.567
  comM Vibrio campbellii strain DS40M4

56.74

100

0.567
  comM Vibrio cholerae strain A1552

56.338

100

0.563
  comM Glaesserella parasuis strain SC1401

55.179

100

0.557
  comM Legionella pneumophila str. Paris

49.9

100

0.501
  comM Legionella pneumophila strain ERS1305867

49.9

100

0.501
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.866

100

0.469