Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JNO49_RS03390 Genome accession   NZ_CP069162
Coordinates   754949..755755 (+) Length   268 a.a.
NCBI ID   WP_028537168.1    Uniprot ID   -
Organism   Paludibacterium yongneupense strain BCRC 80531     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 749949..760755
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNO49_RS03375 - 751333..752484 (+) 1152 WP_028537170.1 porin -
  JNO49_RS03380 pilF 752625..753749 (+) 1125 WP_051229540.1 ATPase, T2SS/T4P/T4SS family Machinery gene
  JNO49_RS03385 - 753761..754948 (+) 1188 WP_028537169.1 type II secretion system F family protein -
  JNO49_RS03390 pilD 754949..755755 (+) 807 WP_028537168.1 A24 family peptidase Machinery gene
  JNO49_RS03395 coaE 755766..756395 (+) 630 WP_028537167.1 dephospho-CoA kinase -
  JNO49_RS03400 zapD 756427..757185 (+) 759 WP_028537166.1 cell division protein ZapD -
  JNO49_RS03405 yacG 757191..757379 (+) 189 WP_084637722.1 DNA gyrase inhibitor YacG -
  JNO49_RS03410 - 757383..758618 (-) 1236 WP_028537165.1 N-acetylmuramoyl-L-alanine amidase -
  JNO49_RS03415 tsaE 758576..759070 (-) 495 WP_028537164.1 tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex ATPase subunit type 1 TsaE -
  JNO49_RS03420 queG 759069..760169 (+) 1101 WP_028537163.1 tRNA epoxyqueuosine(34) reductase QueG -
  JNO49_RS03425 - 760144..760563 (-) 420 WP_028537162.1 MaoC family dehydratase -

Sequence

Protein


Download         Length: 268 a.a.        Molecular weight: 29456.42 Da        Isoelectric Point: 9.1200

>NTDB_id=532569 JNO49_RS03390 WP_028537168.1 754949..755755(+) (pilD) [Paludibacterium yongneupense strain BCRC 80531]
MEIAALALSMPLRLLLAAVLGLMAGSFLNVVVYRLPRMGEANARYNLAWPPSHCPQCRERLRAWQIVPVLSFLLLRGRCA
YCGVAISWRYPLIELLAALAFVVVAWRAPMPLELCAGWILSAVLLALAAIDWREQVLPDALTLPLLWAGLLLNPFLARVP
LYEAVTGAAAGYAVLWLVYWGFRLATGREGLGYGDFKLLAALGAWLGWHALPLVILLSSMAGVVVGGLLMVRSQLKLGQP
MPFGPFLAVAGWLAWVWGDAIMSWYWYG

Nucleotide


Download         Length: 807 bp        

>NTDB_id=532569 JNO49_RS03390 WP_028537168.1 754949..755755(+) (pilD) [Paludibacterium yongneupense strain BCRC 80531]
ATGGAAATCGCAGCGCTGGCGCTCTCTATGCCGTTGCGGCTGTTGCTGGCCGCCGTGCTCGGTCTCATGGCGGGCAGTTT
CCTCAACGTGGTCGTGTATCGCCTGCCGCGCATGGGGGAGGCGAATGCGCGCTACAACCTTGCGTGGCCGCCTTCGCATT
GCCCGCAGTGTCGCGAGCGCCTGCGAGCGTGGCAGATTGTTCCCGTGCTGAGCTTCTTGCTGCTGCGCGGCCGTTGCGCC
TATTGCGGCGTTGCCATTTCCTGGCGTTATCCGTTGATCGAGCTGTTGGCTGCCCTGGCTTTCGTCGTTGTCGCCTGGCG
CGCGCCCATGCCGCTAGAACTGTGCGCCGGCTGGATCTTGAGCGCCGTACTGCTGGCCCTGGCGGCGATAGACTGGCGCG
AGCAGGTGCTGCCCGATGCGCTGACGCTGCCACTGCTGTGGGCGGGGCTGCTGCTGAATCCTTTTCTCGCGCGGGTGCCG
CTATACGAGGCGGTGACCGGGGCGGCGGCCGGGTATGCGGTCCTGTGGCTCGTGTACTGGGGCTTCCGCCTCGCGACCGG
GCGCGAGGGGCTGGGATATGGCGATTTCAAATTGCTGGCGGCGCTTGGCGCCTGGCTGGGCTGGCACGCCTTGCCACTCG
TCATCCTGCTGTCGTCGATGGCGGGGGTCGTGGTCGGCGGCCTGCTCATGGTGCGTTCGCAGCTGAAATTGGGGCAGCCG
ATGCCCTTTGGCCCTTTTCTTGCTGTGGCCGGGTGGTTGGCCTGGGTGTGGGGCGATGCAATAATGTCGTGGTACTGGTA
TGGATAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(119-226)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(19-107)


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

47.794

100

0.485
  pilD Neisseria gonorrhoeae MS11

45.126

100

0.466
  pilD Vibrio campbellii strain DS40M4

44.161

100

0.451
  pilD Acinetobacter baumannii D1279779

43.911

100

0.444
  pilD Acinetobacter nosocomialis M2

43.542

100

0.44