Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACMXYI_RS02455 Genome accession   NZ_CP180481
Coordinates   514244..515116 (+) Length   290 a.a.
NCBI ID   WP_415771472.1    Uniprot ID   -
Organism   Pseudomonas sp. LB3P38     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 509244..520116
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMXYI_RS02430 - 509556..509852 (+) 297 WP_123367810.1 DUF2845 domain-containing protein -
  ACMXYI_RS02435 - 510025..510378 (-) 354 WP_415771464.1 BON domain-containing protein -
  ACMXYI_RS02440 - 510692..511096 (-) 405 WP_415771466.1 pilin -
  ACMXYI_RS02445 pilB 511322..513022 (+) 1701 WP_415771468.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACMXYI_RS02450 pilC 513025..514242 (+) 1218 WP_415771470.1 type II secretion system F family protein Machinery gene
  ACMXYI_RS02455 pilD 514244..515116 (+) 873 WP_415771472.1 prepilin peptidase Machinery gene
  ACMXYI_RS02460 coaE 515113..515736 (+) 624 WP_309674604.1 dephospho-CoA kinase -
  ACMXYI_RS02465 yacG 515733..515933 (+) 201 WP_140681081.1 DNA gyrase inhibitor YacG -
  ACMXYI_RS02470 - 515937..516152 (-) 216 WP_033054332.1 hypothetical protein -
  ACMXYI_RS02475 - 516216..516905 (-) 690 WP_415771473.1 energy-coupling factor ABC transporter permease -
  ACMXYI_RS02480 - 517792..518034 (+) 243 WP_415771474.1 DUF2790 domain-containing protein -
  ACMXYI_RS02485 - 518043..519311 (-) 1269 WP_415771476.1 OprD family porin -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32280.54 Da        Isoelectric Point: 7.9898

>NTDB_id=1096088 ACMXYI_RS02455 WP_415771472.1 514244..515116(+) (pilD) [Pseudomonas sp. LB3P38]
MPLNDTLTLYPLAFVISAMLVGLLIGSFLNVVVWRLPKMLDREWREEAREVLGLPGETPLPTFNLMLPHSQCPHCGHRIR
AWENIPVLSYLFLRGRCSNCTAAISKRYPLTELACGLLSAFIAWHFGFGWQACMALLLSWGLLTMSLIDAEHQLLPDVLV
LPLIWLGLIVNSFGLFVSLHDALWGAVAGYMALWSVFWLFKLITGKDGMGHGDFKLLAMFGAWGGWQILPLTILLSSMVG
AVVGVILLRLRNAKTSTPIPFGPFLAIAGWIALLWGGQITDFYWQFVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1096088 ACMXYI_RS02455 WP_415771472.1 514244..515116(+) (pilD) [Pseudomonas sp. LB3P38]
ATGCCCTTGAACGACACTCTGACCCTCTACCCGTTAGCCTTCGTAATCTCAGCCATGTTGGTCGGCCTGCTGATTGGCAG
TTTTCTCAACGTGGTGGTCTGGCGCCTGCCAAAAATGCTTGACCGCGAATGGCGTGAGGAGGCTCGTGAAGTGTTGGGCT
TGCCAGGCGAAACACCGCTGCCGACCTTCAACCTGATGCTGCCCCATTCCCAGTGCCCACATTGCGGCCATCGAATCCGC
GCCTGGGAAAATATTCCGGTGCTCAGTTATCTGTTCTTACGGGGTCGATGCTCGAACTGCACGGCCGCCATCAGCAAACG
TTACCCGCTGACTGAACTGGCCTGCGGCCTGCTCTCGGCGTTCATCGCCTGGCATTTCGGTTTCGGCTGGCAGGCCTGCA
TGGCGCTGCTCCTGAGCTGGGGGTTGCTGACGATGAGCCTGATCGACGCCGAGCACCAACTGCTGCCGGATGTGTTGGTG
CTGCCGCTGATATGGCTGGGACTGATCGTCAACAGCTTCGGGCTCTTCGTGTCCCTGCATGATGCATTGTGGGGCGCGGT
GGCCGGGTATATGGCGCTGTGGTCAGTGTTCTGGCTGTTCAAGCTGATCACCGGCAAGGACGGCATGGGCCACGGTGATT
TCAAGCTGTTAGCGATGTTCGGCGCCTGGGGTGGCTGGCAGATCTTGCCGCTGACCATCCTGTTATCGTCGATGGTGGGC
GCCGTTGTCGGCGTGATTTTGCTGCGTTTGCGCAACGCGAAAACCTCCACACCGATCCCCTTCGGACCCTTTCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTTTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(137-245)


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

52.482

97.241

0.51
  pilD Vibrio campbellii strain DS40M4

50.709

97.241

0.493
  pilD Acinetobacter baumannii D1279779

48.54

94.483

0.459
  pilD Neisseria gonorrhoeae MS11

49.259

93.103

0.459
  pilD Acinetobacter nosocomialis M2

47.81

94.483

0.452

Multiple sequence alignment