Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   F0P95_RS16210 Genome accession   NZ_CP043567
Coordinates   3555749..3556612 (+) Length   287 a.a.
NCBI ID   WP_182335089.1    Uniprot ID   -
Organism   Stenotrophomonas acidaminiphila strain T0-18     
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 3547395..3559962 3555749..3556612 within 0


Gene organization within MGE regions


Location: 3547395..3559962
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  F0P95_RS16170 - 3547416..3548195 (+) 780 WP_182335081.1 class I SAM-dependent methyltransferase -
  F0P95_RS16175 - 3548192..3549133 (+) 942 WP_182335082.1 lysylphosphatidylglycerol synthase domain-containing protein -
  F0P95_RS16180 - 3549130..3549978 (+) 849 WP_182335083.1 class I SAM-dependent methyltransferase -
  F0P95_RS16185 - 3549971..3551140 (+) 1170 WP_182335084.1 glycosyltransferase -
  F0P95_RS16190 - 3551234..3553111 (-) 1878 WP_182335085.1 hypothetical protein -
  F0P95_RS17740 - 3553434..3553547 (-) 114 Protein_3131 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  F0P95_RS17385 - 3553950..3554042 (-) 93 Protein_3132 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  F0P95_RS16205 pilC 3554482..3555741 (+) 1260 WP_182335088.1 type II secretion system F family protein Machinery gene
  F0P95_RS16210 pilD 3555749..3556612 (+) 864 WP_182335089.1 A24 family peptidase Machinery gene
  F0P95_RS16215 coaE 3556659..3557282 (+) 624 WP_182335090.1 dephospho-CoA kinase -
  F0P95_RS16220 - 3557318..3558655 (-) 1338 WP_182335091.1 HAMP domain-containing sensor histidine kinase -
  F0P95_RS16225 - 3558648..3559325 (-) 678 WP_054667261.1 response regulator transcription factor -
  F0P95_RS16230 - 3559492..3559962 (-) 471 WP_182335092.1 hypothetical protein -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31900.84 Da        Isoelectric Point: 8.2372

>NTDB_id=385185 F0P95_RS16210 WP_182335089.1 3555749..3556612(+) (pilD) [Stenotrophomonas acidaminiphila strain T0-18]
MAFLDQHPGIGYPAAAGLGLLIGSFLNVVILRLPRRMEWQWKRDAREILDEPDIYEPPPPGVVVEPSHCPHCKHKLSWYE
NIPLFSWLLQRGRCRHCQAPISIQYPLVELLTAVLVLASVWQFGFGWQGFGAIVLTCFLIALSGIDLRTQLLPDQLTLPL
MWLGLIGSMDNLYMPTKPALIGAAVGYLSLWTVWWLFKQITGKEGMGHGDFKLLAALGAWCGLKGILPIILLSSLVGAIV
GSVWLYARGRDRATPIPFGPYLAIAGWLVFMWGDPMVAAYRQWAGLA

Nucleotide


Download         Length: 864 bp        

>NTDB_id=385185 F0P95_RS16210 WP_182335089.1 3555749..3556612(+) (pilD) [Stenotrophomonas acidaminiphila strain T0-18]
ATGGCATTTCTCGACCAGCATCCCGGCATCGGCTACCCGGCCGCTGCGGGACTGGGGTTGCTGATCGGCAGCTTCCTTAA
CGTGGTGATCCTGCGCCTGCCCCGGCGCATGGAGTGGCAGTGGAAGCGCGATGCGCGCGAGATCCTCGACGAGCCGGACA
TCTACGAACCGCCGCCGCCGGGCGTGGTGGTGGAGCCCTCGCATTGCCCGCACTGCAAGCACAAGCTGAGCTGGTACGAG
AACATCCCGCTGTTCAGCTGGTTGCTGCAACGCGGGCGCTGCCGCCATTGCCAGGCGCCGATCTCCATCCAGTATCCGCT
GGTGGAACTGCTGACCGCCGTGCTGGTGCTGGCCAGCGTGTGGCAGTTCGGCTTCGGTTGGCAGGGTTTCGGCGCGATCG
TACTGACCTGTTTCCTGATCGCACTGTCCGGCATCGACCTGCGCACCCAGCTGCTGCCCGACCAGCTGACCCTGCCGCTG
ATGTGGCTGGGCCTGATCGGCAGCATGGACAACCTGTACATGCCCACCAAACCTGCGCTGATCGGTGCCGCGGTGGGCTA
CCTGTCGCTGTGGACGGTGTGGTGGCTGTTCAAGCAGATCACCGGCAAGGAGGGCATGGGCCACGGCGATTTCAAGCTGC
TGGCGGCGCTGGGCGCCTGGTGCGGCCTGAAGGGCATCCTGCCGATCATCCTGCTGTCCTCGCTGGTGGGCGCCATCGTC
GGCTCGGTCTGGCTGTACGCGCGCGGACGCGACCGCGCCACGCCCATCCCGTTCGGTCCCTACCTGGCCATCGCCGGCTG
GCTGGTCTTCATGTGGGGCGATCCGATGGTCGCCGCCTACCGGCAGTGGGCCGGCCTGGCGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(133-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)


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 Acinetobacter nosocomialis M2

49.822

97.909

0.488
  pilD Acinetobacter baumannii D1279779

49.11

97.909

0.481
  pilD Vibrio cholerae strain A1552

48.561

96.864

0.47
  pilD Vibrio campbellii strain DS40M4

47.703

98.606

0.47
  pilD Neisseria gonorrhoeae MS11

47.059

94.774

0.446

Multiple sequence alignment