Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   WMB06_RS20195 Genome accession   NZ_CP151275
Coordinates   4438229..4439080 (+) Length   283 a.a.
NCBI ID   WP_341676345.1    Uniprot ID   -
Organism   Niveibacterium sp. SC-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4433229..4444080
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WMB06_RS20180 (WMB06_20180) - 4433843..4435114 (+) 1272 WP_341676342.1 CNNM domain-containing protein -
  WMB06_RS20185 (WMB06_20185) pilB 4435204..4436922 (+) 1719 WP_341676343.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WMB06_RS20190 (WMB06_20190) pilC 4436939..4438177 (+) 1239 WP_341676344.1 type II secretion system F family protein Machinery gene
  WMB06_RS20195 (WMB06_20195) pilD 4438229..4439080 (+) 852 WP_341676345.1 A24 family peptidase Machinery gene
  WMB06_RS20200 (WMB06_20200) - 4439179..4439454 (+) 276 WP_341676346.1 zinc ribbon domain-containing protein -
  WMB06_RS20205 (WMB06_20205) - 4439475..4440104 (+) 630 WP_341676347.1 DUF502 domain-containing protein -
  WMB06_RS20210 (WMB06_20210) aspS 4440394..4442187 (+) 1794 WP_341676348.1 aspartate--tRNA ligase -
  WMB06_RS20215 (WMB06_20215) - 4442293..4443915 (+) 1623 WP_341676349.1 tetratricopeptide repeat protein -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30538.21 Da        Isoelectric Point: 8.6100

>NTDB_id=976060 WMB06_RS20195 WP_341676345.1 4438229..4439080(+) (pilD) [Niveibacterium sp. SC-1]
MIETISQPVPFTFVALVLGLCIGSFLNVVIHRLPKMLEQEWHAQAAELRGEPAPAGEAISLSKPRSRCPHCGTAIAAWQN
VPLLSYVLLGGRCAHCKAKIPMRYPVVELLGGVTAAYSAWHFGFGWAAAGAMLFSWALLALTFIDLDTQLLPDRITLPLL
WLGLLFNLSGQFVTLSEAVLGAIAGYLVLWSVYWLFKLTTGKEGMGYGDFKLLAAIGAWLGWTQLPFVILASSAIGAVVG
ILLIVFARHGRNVPIPFGPYLAGAGLVALFWGKALTQAYLGNF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=976060 WMB06_RS20195 WP_341676345.1 4438229..4439080(+) (pilD) [Niveibacterium sp. SC-1]
ATGATTGAAACCATTTCTCAGCCCGTTCCCTTCACGTTTGTCGCGCTCGTCCTTGGGCTCTGCATCGGCAGCTTCCTCAA
TGTCGTCATTCATCGACTGCCCAAAATGCTGGAGCAGGAGTGGCACGCGCAAGCCGCCGAACTGAGGGGAGAACCGGCTC
CGGCCGGTGAAGCAATCAGTCTGTCCAAACCCCGGTCGCGTTGTCCGCACTGCGGAACCGCCATTGCTGCCTGGCAGAAC
GTGCCTTTGCTTTCCTACGTGCTGCTGGGAGGGCGCTGTGCGCACTGCAAGGCGAAGATCCCGATGCGTTATCCGGTCGT
TGAGCTGCTGGGAGGCGTCACCGCGGCCTATTCGGCCTGGCATTTCGGTTTCGGCTGGGCGGCGGCAGGGGCGATGCTCT
TCTCCTGGGCACTGCTGGCACTCACCTTTATCGACCTCGACACGCAGCTCCTGCCGGACCGCATTACCCTGCCGCTGCTC
TGGCTGGGGCTGCTCTTCAATCTGAGTGGTCAGTTCGTGACGCTGTCCGAAGCGGTCCTTGGCGCGATAGCAGGCTATCT
GGTCCTCTGGAGCGTGTACTGGCTCTTCAAGCTCACCACGGGCAAGGAGGGCATGGGCTATGGCGATTTCAAGCTGCTGG
CGGCCATCGGCGCCTGGCTTGGCTGGACCCAGCTGCCTTTCGTGATCCTGGCCTCGTCTGCGATCGGCGCGGTGGTCGGC
ATTCTCCTGATCGTCTTCGCGCGCCACGGTCGCAACGTGCCGATCCCCTTCGGGCCCTATCTCGCAGGTGCCGGTCTGGT
CGCCCTGTTTTGGGGCAAGGCACTGACTCAGGCCTATCTGGGCAACTTCTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(132-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


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

54.044

96.113

0.519
  pilD Vibrio campbellii strain DS40M4

50.53

100

0.505
  pilD Neisseria gonorrhoeae MS11

49.813

94.346

0.47
  pilD Acinetobacter nosocomialis M2

49.259

95.406

0.47
  pilD Acinetobacter baumannii D1279779

48.889

95.406

0.466

Multiple sequence alignment