Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   R4540_RS09935 Genome accession   NZ_CP137135
Coordinates   2209180..2210055 (+) Length   291 a.a.
NCBI ID   WP_000418755.1    Uniprot ID   -
Organism   Vibrio cholerae V52     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2204180..2215055
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R4540_RS09915 (R4540_09910) nadC 2204529..2205419 (+) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  R4540_RS09920 (R4540_09915) pilA 2205664..2206134 (+) 471 WP_000649323.1 type IV pilin protein Machinery gene
  R4540_RS09925 (R4540_09920) pilB 2206165..2207853 (+) 1689 WP_053048901.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R4540_RS09930 (R4540_09925) pilC 2207896..2209122 (+) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  R4540_RS09935 (R4540_09930) pilD 2209180..2210055 (+) 876 WP_000418755.1 A24 family peptidase Machinery gene
  R4540_RS09940 (R4540_09935) coaE 2210052..2210660 (+) 609 WP_000011559.1 dephospho-CoA kinase -
  R4540_RS09945 (R4540_09940) zapD 2210692..2211432 (+) 741 WP_000207192.1 cell division protein ZapD -
  R4540_RS09950 (R4540_09945) yacG 2211590..2211787 (+) 198 WP_000162866.1 DNA gyrase inhibitor YacG -
  R4540_RS09955 (R4540_09950) parC 2212074..2214359 (-) 2286 WP_000102523.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32437.70 Da        Isoelectric Point: 7.1618

>NTDB_id=896439 R4540_RS09935 WP_000418755.1 2209180..2210055(+) (pilD) [Vibrio cholerae V52]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFGVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=896439 R4540_RS09935 WP_000418755.1 2209180..2210055(+) (pilD) [Vibrio cholerae V52]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTCCTCGCCACGCTGTTTGGCTTGATTGTCGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACACCGATTCGCGTCATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGTTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCTACTCACTTTCCATTCGGGGTGTTTGGCGTGGCGTTGC
TGTTTTTCAGCTATGTGCTGATTGCGGCGACCTTCATCGACTTCGATACTATGTTGCTACCCGACCAATTAACGCTACCC
CTGCTGTGGGGCGGTATTGCGCTGGCACTGCTTGGCTTTTCTCCCGTTTCACTGAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTATTGGCTATTTAAACTGCTGACCGGCAAAGAAGGCATGGGCTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGTGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCCGTAGTCGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATTGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTACTGTGGGGCGACAAGGTGATTGATTGGTACTTCACCACTTGGGTAGGACAACCGCTATGA

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

75.694

98.969

0.749
  pilD Acinetobacter nosocomialis M2

53.676

93.471

0.502
  pilD Acinetobacter baumannii D1279779

53.309

93.471

0.498
  pilD Neisseria gonorrhoeae MS11

44.792

98.969

0.443