Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACLRDL_RS12635 Genome accession   NZ_CP178387
Coordinates   2773635..2774510 (+) Length   291 a.a.
NCBI ID   WP_000418746.1    Uniprot ID   -
Organism   Vibrio cholerae isolate CTMA_1842     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2768635..2779510
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACLRDL_RS12615 (ACLRDL_12615) nadC 2769017..2769907 (+) 891 WP_000665278.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACLRDL_RS12620 (ACLRDL_12620) - 2770152..2770619 (+) 468 WP_000995326.1 pilin -
  ACLRDL_RS12625 (ACLRDL_12625) pilB 2770620..2772308 (+) 1689 WP_000957148.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACLRDL_RS12630 (ACLRDL_12630) pilC 2772351..2773577 (+) 1227 WP_000648509.1 type II secretion system F family protein Machinery gene
  ACLRDL_RS12635 (ACLRDL_12635) pilD 2773635..2774510 (+) 876 WP_000418746.1 prepilin peptidase Machinery gene
  ACLRDL_RS12640 (ACLRDL_12640) coaE 2774507..2775115 (+) 609 WP_000011553.1 dephospho-CoA kinase -
  ACLRDL_RS12645 (ACLRDL_12645) zapD 2775147..2775887 (+) 741 WP_000207194.1 cell division protein ZapD -
  ACLRDL_RS12650 (ACLRDL_12650) yacG 2776045..2776242 (+) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  ACLRDL_RS12655 (ACLRDL_12655) parC 2776529..2778814 (-) 2286 WP_000102510.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32431.72 Da        Isoelectric Point: 7.1618

>NTDB_id=1089403 ACLRDL_RS12635 WP_000418746.1 2773635..2774510(+) (pilD) [Vibrio cholerae isolate CTMA_1842]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYIAIAGWFALLWGDKVIDWYFTVWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=1089403 ACLRDL_RS12635 WP_000418746.1 2773635..2774510(+) (pilD) [Vibrio cholerae isolate CTMA_1842]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTCGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTCATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGTTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCTACTCACTTTCCGTTCGGGGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCGCTGGCACTGCTTGGCTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACTGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATAGTACTGCTCTCATCGGTGGTTGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATATCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCGTTTGGGTAGGACAACCGTTATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

99.313

100

0.993
  pilD Vibrio campbellii strain DS40M4

75

98.969

0.742
  pilD Acinetobacter nosocomialis M2

54.044

93.471

0.505
  pilD Acinetobacter baumannii D1279779

53.676

93.471

0.502
  pilD Neisseria gonorrhoeae MS11

44.444

98.969

0.44

Multiple sequence alignment