Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   V1467_RS16715 Genome accession   NZ_CP150481
Coordinates   3730536..3731411 (+) Length   291 a.a.
NCBI ID   WP_416306108.1    Uniprot ID   -
Organism   Neptunicella sp. SCSIO 80796     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3725536..3736411
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V1467_RS16690 ampE 3725581..3726405 (-) 825 WP_416306103.1 beta-lactamase regulator AmpE -
  V1467_RS16695 - 3727002..3727520 (+) 519 WP_416306104.1 retropepsin-like aspartic protease family protein -
  V1467_RS16700 nadC 3727527..3728366 (+) 840 WP_416306105.1 carboxylating nicotinate-nucleotide diphosphorylase -
  V1467_RS16705 - 3728603..3729046 (+) 444 WP_416306106.1 pilin -
  V1467_RS16710 pilC 3729134..3730354 (+) 1221 WP_416306107.1 type II secretion system F family protein Machinery gene
  V1467_RS16715 pilD 3730536..3731411 (+) 876 WP_416306108.1 prepilin peptidase Machinery gene
  V1467_RS16720 coaE 3731408..3732007 (+) 600 WP_416306109.1 dephospho-CoA kinase -
  V1467_RS16725 zapD 3732097..3732849 (+) 753 WP_416306110.1 cell division protein ZapD -
  V1467_RS16730 yacG 3732918..3733151 (+) 234 WP_416306111.1 DNA gyrase inhibitor YacG -
  V1467_RS16735 mutT 3733247..3733633 (-) 387 WP_416306112.1 8-oxo-dGTP diphosphatase MutT -
  V1467_RS16740 secA 3733684..3736383 (-) 2700 WP_416306113.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32448.38 Da        Isoelectric Point: 5.7421

>NTDB_id=970539 V1467_RS16715 WP_416306108.1 3730536..3731411(+) (pilD) [Neptunicella sp. SCSIO 80796]
MPAIFQLLADNSAFFLSMLFILGLLVGSFLNVVIHRLPIMLERGWQREFQQYFQSDEPQPAEETYNIITPRSRCPKCQSE
ITALQNIPVVSWLVLGGKCKQCKTPISPRYPIVELITGLVSVLVGWQFGFSSACTLALIFSWCMIALTAIDIDKMLLPDQ
ICLPLLWLGLLTSINSVFVNSTDALIGAAVGYLSLWSLYWAFKLLTGKEGMGYGDFKLLAAIGAFVGWQQLPIVIVLSSF
VGAVIGIVHLKMQGKDQSQPIPFGPYLAIAGWITLLYGDWIADQYWNWMLN

Nucleotide


Download         Length: 876 bp        

>NTDB_id=970539 V1467_RS16715 WP_416306108.1 3730536..3731411(+) (pilD) [Neptunicella sp. SCSIO 80796]
ATGCCTGCGATATTTCAATTATTGGCTGATAACTCAGCCTTTTTTCTGTCTATGCTGTTTATATTGGGGTTATTAGTTGG
CAGCTTTCTGAATGTAGTGATCCACCGATTACCTATTATGCTGGAGAGAGGCTGGCAGCGAGAATTTCAACAATATTTTC
AATCTGATGAGCCACAACCTGCCGAAGAAACTTACAACATCATCACCCCTCGCTCACGCTGCCCAAAATGTCAGTCTGAA
ATTACCGCACTGCAGAACATTCCTGTTGTCAGCTGGTTAGTGTTGGGCGGGAAGTGCAAGCAATGTAAAACCCCCATTTC
ACCGCGTTACCCCATAGTCGAGTTAATCACCGGGTTAGTATCCGTTTTGGTTGGCTGGCAATTCGGTTTTTCCTCCGCCT
GTACTTTAGCCCTTATCTTTAGTTGGTGCATGATTGCGCTGACCGCCATTGACATAGATAAAATGCTGTTGCCCGATCAA
ATTTGTCTGCCGTTGCTATGGTTAGGTTTATTGACCAGTATTAATAGCGTATTTGTTAATAGTACTGACGCACTAATTGG
CGCGGCTGTCGGTTATCTAAGCTTGTGGAGCTTATACTGGGCCTTCAAGCTGCTGACCGGTAAGGAAGGAATGGGCTATG
GTGACTTCAAGCTACTGGCTGCCATCGGCGCTTTTGTTGGCTGGCAACAACTGCCGATAGTGATTGTGTTGTCTTCTTTT
GTCGGGGCCGTGATCGGAATTGTTCATTTAAAAATGCAAGGTAAAGATCAAAGCCAGCCTATTCCCTTCGGGCCCTATCT
GGCTATTGCTGGCTGGATAACCTTGCTATATGGCGACTGGATTGCCGATCAATACTGGAACTGGATGTTAAATTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-128)

Type IV leader peptidase family (Peptidase_A24)

(139-247)


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

53.358

92.096

0.491
  pilD Vibrio campbellii strain DS40M4

49.64

95.533

0.474
  pilD Acinetobacter baumannii D1279779

48.679

91.065

0.443
  pilD Neisseria gonorrhoeae MS11

46.57

95.189

0.443
  pilD Acinetobacter nosocomialis M2

47.925

91.065

0.436

Multiple sequence alignment