Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   APY29_RS05335 Genome accession   NZ_CP013004
Coordinates   1192411..1193469 (+) Length   352 a.a.
NCBI ID   WP_005911892.1    Uniprot ID   A0AAX0HYN4
Organism   Xanthomonas citri pv. malvacearum strain XcmH1005     
Function   assembly of type IV pilus (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 1183456..1216185 1192411..1193469 within 0


Gene organization within MGE regions


Location: 1183456..1216185
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  APY29_RS05305 (APY29_05050) recG 1183456..1185609 (+) 2154 WP_003486161.1 ATP-dependent DNA helicase RecG -
  APY29_RS05310 (APY29_05055) - 1185739..1186677 (+) 939 WP_089504423.1 nucleoside hydrolase -
  APY29_RS05315 (APY29_05060) - 1186749..1186991 (+) 243 WP_005911911.1 type B 50S ribosomal protein L31 -
  APY29_RS05320 (APY29_05065) - 1187221..1188510 (+) 1290 WP_003486167.1 citrate synthase -
  APY29_RS05325 (APY29_05070) - 1188771..1189421 (-) 651 WP_005911897.1 hypothetical protein -
  APY29_RS05330 (APY29_05075) - 1189772..1192294 (-) 2523 WP_078566290.1 penicillin-binding protein 1A -
  APY29_RS05335 (APY29_05080) comM 1192411..1193469 (+) 1059 WP_005911892.1 pilus assembly protein PilM Machinery gene
  APY29_RS05340 (APY29_05085) - 1193469..1194251 (+) 783 WP_005911890.1 PilN domain-containing protein -
  APY29_RS05345 (APY29_05090) - 1194248..1194913 (+) 666 WP_003486177.1 type 4a pilus biogenesis protein PilO -
  APY29_RS05350 (APY29_05095) - 1194910..1195443 (+) 534 WP_003486179.1 pilus assembly protein PilP -
  APY29_RS05355 (APY29_05100) - 1195463..1197365 (+) 1903 Protein_987 type IV pilus secretin PilQ family protein -
  APY29_RS05360 - 1197427..1198203 (+) 777 WP_078566289.1 hypothetical protein -
  APY29_RS05365 (APY29_05105) - 1198320..1199375 (+) 1056 WP_150130660.1 MoxR family ATPase -
  APY29_RS05370 (APY29_05110) - 1199396..1200358 (+) 963 WP_033836792.1 DUF58 domain-containing protein -
  APY29_RS05375 (APY29_05115) - 1200361..1200822 (+) 462 WP_033836791.1 DUF4381 family protein -
  APY29_RS05380 (APY29_05120) - 1200819..1201826 (+) 1008 WP_033836790.1 VWA domain-containing protein -
  APY29_RS05385 (APY29_05125) - 1201823..1203628 (+) 1806 WP_033836789.1 VWA domain-containing protein -
  APY29_RS05390 (APY29_05130) - 1203625..1205372 (+) 1748 Protein_994 BatD family protein -
  APY29_RS05400 (APY29_05135) - 1206256..1207536 (+) 1281 WP_078566287.1 dicarboxylate/amino acid:cation symporter -
  APY29_RS05405 (APY29_05140) tkt 1207762..1209762 (+) 2001 WP_033836788.1 transketolase -
  APY29_RS25135 (APY29_05145) - 1209869..1210309 (-) 441 WP_033481503.1 hypothetical protein -
  APY29_RS25140 - 1210279..1210860 (-) 582 WP_223300980.1 alpha/beta fold hydrolase -
  APY29_RS05415 (APY29_05160) fhuE 1211257..1213443 (+) 2187 WP_033836787.1 ferric-rhodotorulic acid/ferric-coprogen receptor FhuE -
  APY29_RS05420 (APY29_05165) - 1213913..1214398 (+) 486 WP_005917516.1 hypothetical protein -
  APY29_RS05425 (APY29_05170) - 1214566..1215021 (-) 456 Protein_1001 M23 family metallopeptidase -
  APY29_RS05430 (APY29_05180) - 1215098..1216185 (+) 1088 WP_089504397.1 IS3-like element ISXac2 family transposase -

Sequence

Protein


Download         Length: 352 a.a.        Molecular weight: 37579.19 Da        Isoelectric Point: 4.3924

>NTDB_id=159093 APY29_RS05335 WP_005911892.1 1192411..1193469(+) (comM) [Xanthomonas citri pv. malvacearum strain XcmH1005]
MGLLPKSQSPLIGVDISSTAVKLLQLSRSGSRFRVEHYAVEPLPPNAVVEKNIVEVEAVGEAIRRAINRSGSKAKNAAAA
VAGSAVITKLIPMPADLDDSDLEAQVELEATNYIPYPIEEVNLDFEVLGPMPNSPDMVQVLLAASRSENVELRQSALELG
GLTAKVMDVEAFAVENAFALVASELPVAADAVVALVDIGATMTTLSVLRSGRSLYSREQVFGGKQLTDEVMRRYGLTYEE
AGLAKRQGGLPESYEVEVLEPFKEATVQQISRLLQFFYAGSEFNRVDCIVLAGGCAALARLPEMVEEQLGVTTVVANPLA
QMTLGPKVQAHALALDAPALMIATGLALRSFD

Nucleotide


Download         Length: 1059 bp        

>NTDB_id=159093 APY29_RS05335 WP_005911892.1 1192411..1193469(+) (comM) [Xanthomonas citri pv. malvacearum strain XcmH1005]
GTGGGGCTTTTACCCAAGAGTCAGTCGCCACTGATTGGTGTCGACATTAGTTCGACTGCCGTGAAGCTCTTGCAGCTATC
GCGCAGCGGGAGCCGTTTCCGCGTGGAACATTACGCGGTGGAACCATTGCCGCCGAATGCGGTCGTGGAAAAGAACATCG
TCGAAGTGGAAGCGGTGGGCGAAGCCATTCGCCGCGCCATCAACCGTTCCGGCAGCAAGGCCAAGAACGCGGCAGCTGCC
GTGGCAGGGTCGGCGGTGATCACCAAGTTGATTCCGATGCCGGCCGATCTGGACGATAGCGACCTGGAAGCCCAGGTCGA
ACTGGAAGCCACCAATTACATTCCGTACCCGATCGAGGAAGTGAATCTCGATTTCGAGGTGCTGGGCCCGATGCCCAATA
GCCCGGACATGGTGCAGGTGCTGCTGGCCGCCTCGCGTTCGGAGAATGTGGAACTGCGCCAGTCGGCGCTGGAACTCGGC
GGCCTGACCGCCAAGGTAATGGACGTGGAGGCCTTTGCGGTCGAAAACGCCTTCGCCCTGGTTGCCAGCGAATTGCCGGT
AGCCGCCGATGCGGTGGTGGCGCTGGTGGATATCGGCGCGACCATGACCACGCTGAGCGTGCTGCGCTCCGGGCGCAGTC
TGTATAGCCGCGAGCAGGTGTTCGGCGGCAAGCAGCTCACTGACGAAGTGATGCGCCGTTACGGGCTGACCTATGAAGAG
GCTGGCCTTGCCAAGCGTCAGGGCGGCCTGCCGGAAAGCTACGAGGTCGAAGTGTTGGAGCCGTTCAAGGAAGCCACGGT
GCAGCAGATCAGCCGTCTGCTGCAGTTCTTCTATGCGGGCAGTGAGTTCAACCGCGTCGACTGCATCGTGCTGGCCGGCG
GTTGTGCCGCGCTGGCGCGCCTGCCGGAGATGGTGGAAGAGCAGCTCGGTGTGACCACGGTCGTTGCAAATCCGCTTGCC
CAGATGACGCTTGGCCCGAAGGTTCAGGCCCATGCGCTGGCGCTGGATGCGCCTGCACTGATGATCGCCACCGGCCTGGC
CCTGAGGAGCTTCGACTGA

Domains

Predicted by InterproScan.

Type IV pilus assembly protein PilM; (PilM_2)

(13-351)


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 Acinetobacter nosocomialis M2

51.136

100

0.511
  comM Acinetobacter baylyi ADP1

50.997

99.716

0.509
  pilM Acinetobacter baumannii D1279779

50.852

100

0.509
  pilM Legionella pneumophila strain ERS1305867

47.293

99.716

0.472

Multiple sequence alignment