Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OV592_RS18080 Genome accession   NZ_CP113525
Coordinates   3936119..3937000 (+) Length   293 a.a.
NCBI ID   WP_406609556.1    Uniprot ID   -
Organism   Agarivorans sp. JK6     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3931119..3942000
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OV592_RS18060 nadC 3931540..3932379 (+) 840 WP_406609552.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OV592_RS18065 - 3932633..3933073 (+) 441 WP_406609553.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OV592_RS18070 pilB 3933078..3934778 (+) 1701 WP_406609554.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OV592_RS18075 pilC 3934866..3936116 (+) 1251 WP_406609555.1 type II secretion system F family protein Machinery gene
  OV592_RS18080 pilD 3936119..3937000 (+) 882 WP_406609556.1 prepilin peptidase Machinery gene
  OV592_RS18085 coaE 3936997..3937599 (+) 603 WP_406609557.1 dephospho-CoA kinase -
  OV592_RS18090 zapD 3937658..3938398 (+) 741 WP_406609558.1 cell division protein ZapD -
  OV592_RS18095 yacG 3938398..3938598 (+) 201 WP_406609559.1 DNA gyrase inhibitor YacG -
  OV592_RS18100 mutT 3938601..3939005 (-) 405 WP_406609560.1 8-oxo-dGTP diphosphatase MutT -
  OV592_RS18105 secA 3939072..3941789 (-) 2718 WP_016400792.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 293 a.a.        Molecular weight: 32522.68 Da        Isoelectric Point: 6.2066

>NTDB_id=762755 OV592_RS18080 WP_406609556.1 3936119..3937000(+) (pilD) [Agarivorans sp. JK6]
MLSFIELYPATALGFCLVIALCVGSFLNVVIHRLPIMLERQWKNECRSFLSEELKSEPPSEQEVYNLMLPRSACPKCNSL
ITAWQNIPVISWLVLRGKCANCSNPISIRYPMVELASAGLTLTCWWQFGLTLPFVFASLFCIILLCLTLIDLDTMYLPDQ
LTLPTLWLGLLINLDSGFVSLHDAVLGAAIGYGFLWSLFWLFKLLTGKEGMGYGDFKLLAMIGAWFGWQALPLTILLSSF
AGALIGIGLIVLGKNKQGQAIPFGPYLALGGACYLFFGEVIHTWYFSYLGFAS

Nucleotide


Download         Length: 882 bp        

>NTDB_id=762755 OV592_RS18080 WP_406609556.1 3936119..3937000(+) (pilD) [Agarivorans sp. JK6]
ATGCTTAGTTTTATTGAACTATACCCAGCCACTGCGCTGGGTTTCTGCCTTGTAATCGCCCTATGCGTAGGCTCCTTTCT
CAATGTAGTGATTCATCGCTTGCCCATCATGTTAGAGCGACAATGGAAAAATGAATGCCGCAGTTTCTTGTCTGAAGAGT
TGAAGTCAGAGCCCCCCTCAGAGCAAGAAGTGTATAACCTGATGCTGCCACGCTCGGCCTGCCCTAAGTGCAATAGCTTA
ATTACCGCCTGGCAAAATATACCTGTGATTAGCTGGCTTGTCCTTCGCGGCAAGTGTGCTAACTGTAGTAACCCCATTAG
CATCCGCTACCCTATGGTTGAGCTTGCATCAGCAGGATTAACCCTGACCTGTTGGTGGCAGTTTGGCCTTACTTTACCCT
TTGTATTTGCAAGCTTGTTTTGCATTATATTGCTCTGTCTAACTCTTATCGATTTGGACACCATGTATTTGCCTGATCAG
CTTACTTTGCCCACCTTATGGCTAGGCTTGCTGATAAATTTAGATTCAGGTTTCGTTAGCCTACATGACGCCGTATTGGG
TGCAGCTATTGGTTATGGCTTTTTGTGGAGCCTGTTTTGGCTATTTAAGCTATTAACCGGAAAAGAAGGCATGGGCTATG
GTGACTTTAAACTGCTAGCAATGATTGGGGCTTGGTTTGGTTGGCAAGCCCTGCCATTAACCATTTTACTCTCTTCCTTT
GCTGGCGCGCTTATTGGTATTGGCCTGATTGTGCTTGGTAAAAATAAACAAGGGCAAGCCATTCCTTTTGGCCCGTACCT
AGCTTTAGGTGGCGCTTGCTACTTGTTTTTTGGTGAAGTGATTCATACTTGGTATTTCTCATACCTAGGTTTTGCATCGT
GA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(139-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-128)


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 campbellii strain DS40M4

50.347

98.294

0.495
  pilD Vibrio cholerae strain A1552

50.526

97.27

0.491
  pilD Acinetobacter baumannii D1279779

47.183

96.928

0.457
  pilD Acinetobacter nosocomialis M2

46.996

96.587

0.454
  pilD Neisseria gonorrhoeae MS11

48.846

88.737

0.433