Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   C3Z06_RS27680 Genome accession   NZ_CP026544
Coordinates   5911806..5912675 (+) Length   289 a.a.
NCBI ID   WP_024570929.1    Uniprot ID   A0A2L0XAD0
Organism   Cupriavidus metallidurans strain Ni-2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5906806..5917675
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C3Z06_RS27660 (C3Z06_27665) ispB 5907346..5908275 (+) 930 WP_017514705.1 octaprenyl diphosphate synthase -
  C3Z06_RS27670 (C3Z06_27675) pilF 5908771..5910492 (+) 1722 WP_024570928.1 type IV-A pilus assembly ATPase PilB Machinery gene
  C3Z06_RS27675 (C3Z06_27680) - 5910522..5911787 (+) 1266 WP_017515802.1 type II secretion system F family protein -
  C3Z06_RS27680 (C3Z06_27685) pilD 5911806..5912675 (+) 870 WP_024570929.1 prepilin peptidase Machinery gene
  C3Z06_RS27685 (C3Z06_27690) coaE 5912746..5913390 (+) 645 WP_017515849.1 dephospho-CoA kinase -
  C3Z06_RS27690 (C3Z06_27695) zapD 5913613..5914371 (+) 759 WP_008650332.1 cell division protein ZapD -
  C3Z06_RS27695 (C3Z06_27700) - 5914380..5914571 (+) 192 WP_008650330.1 DNA gyrase inhibitor YacG -
  C3Z06_RS27700 (C3Z06_27705) - 5914657..5916687 (-) 2031 WP_017514217.1 OPT family oligopeptide transporter -
  C3Z06_RS27705 (C3Z06_27710) - 5916743..5917186 (-) 444 WP_017514216.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31294.43 Da        Isoelectric Point: 7.7627

>NTDB_id=270215 C3Z06_RS27680 WP_024570929.1 5911806..5912675(+) (pilD) [Cupriavidus metallidurans strain Ni-2]
MQAVLSSLAALPPAFLIVAAGVVGLMVGSFLNVVIHRLPKMMEYDEANYIAEIRDEPLPHPERYNLMVPRSACPKCGHQI
APWENIPVISYLFLRGRCKACKTPIGIRYPLVELVTAALSALAMWHFGPTAQALAAIVMIWSLVALFMIDADTQLLPDQI
TLPLLWLGLLLNLQGLFAPLADAVIGAAAGYLLLWSVYWLYKLVRGREGMGHGDFKLMAALGAWFGWQALPALILMSSVV
GAVLGGAMLVFRRKSSDTAFPFGPYIVGAGLIVLFFGADVLPLTLVAGH

Nucleotide


Download         Length: 870 bp        

>NTDB_id=270215 C3Z06_RS27680 WP_024570929.1 5911806..5912675(+) (pilD) [Cupriavidus metallidurans strain Ni-2]
ATGCAAGCTGTCCTGTCATCGCTGGCGGCGTTGCCGCCAGCTTTCCTTATTGTCGCGGCAGGGGTGGTTGGCCTGATGGT
CGGCAGTTTCCTCAACGTGGTGATCCATCGTCTGCCGAAGATGATGGAGTACGACGAGGCCAACTACATCGCGGAAATCC
GCGACGAACCGCTGCCGCACCCCGAGCGTTATAACCTGATGGTGCCGCGATCCGCGTGCCCGAAGTGCGGCCACCAGATC
GCCCCCTGGGAGAATATTCCGGTCATCAGCTACCTGTTCCTGCGTGGCCGCTGCAAGGCCTGCAAGACGCCGATCGGCAT
CCGCTATCCGCTCGTCGAGCTGGTCACGGCGGCGCTCAGCGCCCTGGCGATGTGGCACTTCGGTCCGACGGCGCAGGCGC
TGGCCGCGATCGTGATGATCTGGTCGCTGGTCGCGTTGTTCATGATCGATGCCGACACCCAGCTTCTGCCAGACCAGATC
ACACTGCCGCTGCTGTGGCTGGGCCTGCTGCTGAACCTGCAGGGCCTGTTCGCGCCGCTGGCGGATGCCGTCATCGGCGC
TGCGGCGGGCTACCTGCTGCTGTGGAGCGTCTATTGGCTCTACAAGCTCGTGCGGGGCCGCGAGGGCATGGGCCACGGCG
ATTTCAAGTTGATGGCGGCGCTTGGCGCATGGTTCGGCTGGCAGGCACTGCCCGCGCTGATCCTGATGTCGTCGGTTGTC
GGCGCCGTACTTGGCGGCGCGATGCTGGTCTTCCGCCGCAAGAGTAGTGACACGGCCTTCCCGTTTGGCCCGTACATCGT
CGGTGCCGGGCTGATCGTGCTGTTCTTTGGCGCGGACGTATTACCGCTGACGTTGGTGGCCGGACACTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-127)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A2L0XAD0

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

52.381

94.464

0.495
  pilD Vibrio campbellii strain DS40M4

52.206

94.118

0.491
  pilD Neisseria gonorrhoeae MS11

49.265

94.118

0.464
  pilD Acinetobacter baumannii D1279779

45.588

94.118

0.429
  pilD Acinetobacter nosocomialis M2

44.485

94.118

0.419

Multiple sequence alignment