Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VXM60_RS02185 Genome accession   NZ_CP143082
Coordinates   476501..477415 (-) Length   304 a.a.
NCBI ID   WP_338591339.1    Uniprot ID   -
Organism   Shewanella khirikhana strain JW44     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 471501..482415
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VXM60_RS02165 (VXM60_02165) mutT 474442..474837 (-) 396 WP_338591334.1 8-oxo-dGTP diphosphatase MutT -
  VXM60_RS02170 (VXM60_02170) yacG 474879..475094 (-) 216 WP_126169201.1 DNA gyrase inhibitor YacG -
  VXM60_RS02175 (VXM60_02175) zapD 475157..475891 (-) 735 WP_338591335.1 cell division protein ZapD -
  VXM60_RS02180 (VXM60_02180) coaE 475884..476501 (-) 618 WP_338591337.1 dephospho-CoA kinase -
  VXM60_RS02185 (VXM60_02185) pilD 476501..477415 (-) 915 WP_338591339.1 A24 family peptidase Machinery gene
  VXM60_RS02190 (VXM60_02190) pilC 477442..478701 (-) 1260 WP_126169205.1 type II secretion system F family protein Machinery gene
  VXM60_RS02195 (VXM60_02195) pilB 478736..480442 (-) 1707 WP_338591341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VXM60_RS02200 (VXM60_02200) - 480499..481014 (-) 516 WP_338593437.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33718.94 Da        Isoelectric Point: 6.4734

>NTDB_id=928138 VXM60_RS02185 WP_338591339.1 476501..477415(-) (pilD) [Shewanella khirikhana strain JW44]
MTEFISLMSQYPWLFILLAFIFAATIGSFLNVVIHRLPVMMKREWQQECNAYLEEYQPELFKKLGKANLEQPIDGYPPRY
NLIVPGSSCPKCGNGIKPWHNLPVLGWLVLGGKCASCKAAISSRYPIVEAFTGVAVAALAWHFGPTWEFAASALLTFGLI
AMSGIDLDEMLLPDSLTLPLLWLGLLLNYQGLFTSLEDALIGAVAGYLSLWSVYWLFKITTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALLGIAMMVWKSHKRENPIPFGPYIAAAGWIALVWGNDIVTWYLGSL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=928138 VXM60_RS02185 WP_338591339.1 476501..477415(-) (pilD) [Shewanella khirikhana strain JW44]
ATGACCGAATTTATCTCCCTAATGAGCCAGTACCCCTGGCTCTTTATTTTGCTCGCATTCATTTTTGCAGCCACCATTGG
CAGTTTTTTGAATGTCGTTATTCATCGCCTTCCCGTCATGATGAAAAGAGAGTGGCAGCAGGAATGTAACGCCTATCTGG
AAGAATACCAGCCTGAGCTTTTTAAAAAACTTGGAAAAGCAAATCTGGAACAGCCCATTGATGGTTATCCCCCACGTTAC
AACCTGATTGTCCCAGGCTCCTCCTGCCCCAAATGTGGCAACGGCATCAAGCCTTGGCACAATCTGCCTGTTCTGGGATG
GCTCGTGCTTGGTGGCAAATGTGCCTCATGTAAAGCCGCTATATCCAGTCGCTACCCCATTGTTGAAGCATTTACAGGTG
TCGCTGTCGCCGCTCTCGCGTGGCATTTTGGCCCTACATGGGAATTTGCGGCATCAGCCTTGTTAACCTTCGGTCTGATT
GCTATGTCAGGTATCGATCTGGATGAGATGCTGCTACCCGACAGCCTTACTCTGCCGCTGTTGTGGCTTGGATTGCTGCT
GAATTACCAAGGCCTTTTCACCAGTCTAGAGGATGCGCTGATTGGTGCCGTTGCGGGCTACCTGTCGCTTTGGTCGGTTT
ATTGGCTATTTAAGATTACCACCGGCAAGGAAGGCATGGGTTATGGTGACTTCAAGTTGATGGCACTCTTTGGGGCCTGG
CTTGGCTGGCAAATGCTGCCGCTTATCATCCTGCTCTCGAGCCTCGTCGGCGCCCTTTTAGGCATCGCGATGATGGTTTG
GAAAAGCCATAAACGGGAGAATCCAATTCCATTCGGCCCCTATATAGCTGCTGCAGGCTGGATAGCACTTGTGTGGGGGA
ATGACATCGTTACCTGGTACTTGGGAAGCCTGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)

Type IV leader peptidase family (Peptidase_A24)

(154-262)


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 campbellii strain DS40M4

49.835

99.671

0.497
  pilD Vibrio cholerae strain A1552

49.502

99.013

0.49
  pilD Acinetobacter baumannii D1279779

48.789

95.066

0.464
  pilD Acinetobacter nosocomialis M2

48.097

95.066

0.457
  pilD Neisseria gonorrhoeae MS11

43.403

94.737

0.411