Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   MUU77_RS04400 Genome accession   NZ_CP095187
Coordinates   962301..963164 (-) Length   287 a.a.
NCBI ID   WP_187573334.1    Uniprot ID   -
Organism   Pseudoxanthomonas sp. F37     
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)
Genomic island 960408..975976 962301..963164 within 0


Gene organization within MGE regions


Location: 960408..975976
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MUU77_RS04390 (MUU77_04390) - 960801..961226 (+) 426 WP_245092010.1 transposase -
  MUU77_RS04395 (MUU77_04395) coaE 961650..962267 (-) 618 WP_245092012.1 dephospho-CoA kinase -
  MUU77_RS04400 (MUU77_04400) pilD 962301..963164 (-) 864 WP_187573334.1 A24 family peptidase Machinery gene
  MUU77_RS04405 (MUU77_04405) pilC 963174..964430 (-) 1257 WP_245094214.1 type II secretion system F family protein Machinery gene
  MUU77_RS04410 (MUU77_04410) pilB 964728..966470 (-) 1743 WP_245092015.1 type IV-A pilus assembly ATPase PilB Machinery gene
  MUU77_RS04415 (MUU77_04415) - 966685..967533 (+) 849 WP_245092019.1 glycosyltransferase family 2 protein -
  MUU77_RS04420 (MUU77_04420) - 967548..968777 (+) 1230 WP_245092023.1 glycosyltransferase family 4 protein -
  MUU77_RS04425 (MUU77_04425) - 968817..970007 (+) 1191 WP_245092025.1 oligosaccharide flippase family protein -
  MUU77_RS04430 (MUU77_04430) - 969988..971118 (-) 1131 WP_245092027.1 glycosyltransferase -
  MUU77_RS04435 (MUU77_04435) - 971125..971994 (-) 870 WP_245092029.1 FkbM family methyltransferase -
  MUU77_RS04440 (MUU77_04440) - 971991..972776 (-) 786 WP_245092031.1 class I SAM-dependent methyltransferase -
  MUU77_RS04445 (MUU77_04445) - 972879..973973 (+) 1095 WP_245092033.1 glycosyltransferase family 4 protein -
  MUU77_RS04450 (MUU77_04450) - 974030..975964 (-) 1935 WP_245092035.1 hypothetical protein -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31877.78 Da        Isoelectric Point: 8.5960

>NTDB_id=676030 MUU77_RS04400 WP_187573334.1 962301..963164(-) (pilD) [Pseudoxanthomonas sp. F37]
MAFLDQHPELGYPVVAGLGLLVGSFLNVVILRLPRRLEWEWKRDAREVLEEPEIYDPPPPGIVVERSHCPHCKTPLSWYE
NIPLFSWLVLRGKCRHCKAPISPQYPLVELLTALLAMASVWRFGFGWQGFGAALFSCYLVALSGIDLRTRLLPDQLTLPL
MWLGLIGSLDNLYMPAKPALLGAIAGYVSLWLVWWLFKQVTGKEGMGRGDFKLLAAIGAWVGLNGVLPTLLLSSVVGAVI
GSVWLATQGRDRATPIPFGPYLAIAGWIVFFWGPQIIDAYLRFAGLK

Nucleotide


Download         Length: 864 bp        

>NTDB_id=676030 MUU77_RS04400 WP_187573334.1 962301..963164(-) (pilD) [Pseudoxanthomonas sp. F37]
ATGGCATTCCTGGATCAACACCCCGAACTGGGGTACCCGGTGGTGGCAGGCCTGGGCCTGCTGGTGGGCAGCTTCCTCAA
CGTGGTCATCCTGCGGCTGCCACGGCGGCTGGAGTGGGAGTGGAAGCGCGACGCGCGCGAGGTGCTGGAGGAGCCGGAGA
TCTACGATCCCCCGCCGCCCGGCATCGTGGTGGAGCGCTCGCACTGCCCCCACTGCAAGACGCCGCTGTCGTGGTACGAG
AACATCCCGCTGTTCAGCTGGCTGGTGCTGCGCGGCAAGTGCCGCCACTGCAAGGCCCCCATCTCGCCGCAGTATCCGCT
GGTGGAACTGCTGACCGCGCTGCTGGCGATGGCGTCGGTGTGGCGCTTCGGCTTCGGCTGGCAGGGGTTCGGCGCGGCCC
TCTTCAGCTGCTACCTGGTGGCGCTGAGCGGCATCGACCTGCGCACCCGGCTGCTGCCCGACCAGCTGACCCTGCCGCTG
ATGTGGCTGGGCCTGATCGGCAGTCTGGACAACCTGTACATGCCGGCCAAGCCGGCGCTGCTGGGCGCGATCGCCGGCTA
TGTCTCGCTGTGGCTGGTGTGGTGGCTGTTCAAGCAGGTCACCGGCAAGGAGGGCATGGGCCGGGGCGACTTCAAGCTGC
TGGCGGCCATCGGTGCCTGGGTGGGGCTCAACGGCGTGTTGCCGACGCTGCTGCTGTCCTCGGTGGTCGGCGCGGTTATC
GGTTCGGTATGGCTGGCCACGCAGGGCCGCGACCGCGCCACGCCGATCCCCTTCGGCCCCTACCTGGCCATCGCCGGCTG
GATCGTGTTCTTCTGGGGCCCGCAGATCATCGACGCCTACCTGCGTTTCGCCGGGCTGAAATAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)

Type IV leader peptidase family (Peptidase_A24)

(135-241)


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
  pilD Vibrio cholerae strain A1552

51.636

95.819

0.495
  pilD Vibrio campbellii strain DS40M4

47.887

98.955

0.474
  pilD Acinetobacter nosocomialis M2

47.163

98.258

0.463
  pilD Acinetobacter baumannii D1279779

46.454

98.258

0.456
  pilD Neisseria gonorrhoeae MS11

44.649

94.425

0.422