Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   A3Q33_RS05875 Genome accession   NZ_CP014943
Coordinates   1405853..1406713 (+) Length   286 a.a.
NCBI ID   WP_081179144.1    Uniprot ID   -
Organism   Colwellia sp. PAMC 21821     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1400853..1411713
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A3Q33_RS05860 (A3Q33_05850) - 1401924..1402370 (+) 447 WP_286160900.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  A3Q33_RS05865 (A3Q33_05855) pilB 1402500..1404206 (+) 1707 WP_081179142.1 type IV-A pilus assembly ATPase PilB Machinery gene
  A3Q33_RS05870 (A3Q33_05860) pilC 1404390..1405646 (+) 1257 WP_081179143.1 type II secretion system F family protein Machinery gene
  A3Q33_RS05875 (A3Q33_05865) pilD 1405853..1406713 (+) 861 WP_081179144.1 A24 family peptidase Machinery gene
  A3Q33_RS05880 (A3Q33_05870) coaE 1406841..1407452 (+) 612 WP_081179145.1 dephospho-CoA kinase -
  A3Q33_RS05885 (A3Q33_05875) zapD 1407545..1408291 (+) 747 WP_081179146.1 cell division protein ZapD -
  A3Q33_RS05890 (A3Q33_05880) yacG 1408472..1408708 (+) 237 WP_081179147.1 DNA gyrase inhibitor YacG -
  A3Q33_RS05895 (A3Q33_05885) mutT 1408805..1409203 (-) 399 WP_081179148.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31794.91 Da        Isoelectric Point: 7.6595

>NTDB_id=175226 A3Q33_RS05875 WP_081179144.1 1405853..1406713(+) (pilD) [Colwellia sp. PAMC 21821]
MTNSTAYFYAIVFVFSLLIGSFLNVVIYRLPKMLEQGWKSECREFLADELAKPIKADDNLITLSTPSSSCPSCKHKIRFY
ENIPVISWLFLRGKCSQCQEKISLRYPLVELATALLSVVIAAHYGVTFTTLMLLVLTWGLIALTLIDVDHMLLPDQITLP
LLWLGLLVNINGAIVPLSDAVIGAVAGYMSLFSIFWLFKLITGKDGMGNGDFKLVALFGAWLGWQLLPLLILMASAVGAV
IGISLMVFKNHQREQAIPFGPYLAIAGWITLLWGNSIWSWYLSSLI

Nucleotide


Download         Length: 861 bp        

>NTDB_id=175226 A3Q33_RS05875 WP_081179144.1 1405853..1406713(+) (pilD) [Colwellia sp. PAMC 21821]
ATGACAAATTCTACGGCATATTTCTACGCGATAGTGTTTGTTTTTTCTTTGCTGATCGGCAGTTTTTTAAACGTGGTCAT
TTATCGCTTGCCTAAAATGCTTGAGCAAGGCTGGAAAAGTGAATGCCGCGAATTTTTAGCTGATGAGTTAGCAAAACCAA
TAAAAGCTGACGATAACCTGATCACCCTTTCAACACCAAGTTCGAGCTGCCCTTCATGTAAACATAAAATTCGTTTCTAC
GAAAATATTCCGGTCATAAGTTGGTTGTTTTTACGTGGAAAATGTAGCCAATGTCAGGAAAAAATATCACTGCGCTACCC
ATTAGTTGAGTTAGCTACCGCATTATTAAGCGTAGTTATTGCCGCCCATTACGGCGTTACCTTCACCACGCTTATGCTAT
TAGTGTTAACTTGGGGTTTAATTGCTTTAACCTTAATTGATGTAGACCACATGTTATTGCCTGACCAAATAACCTTGCCA
TTATTGTGGTTAGGGCTATTGGTGAATATTAATGGTGCCATTGTACCGTTAAGCGACGCAGTTATTGGCGCAGTTGCCGG
TTACATGAGCTTGTTCAGCATATTCTGGCTGTTTAAATTAATTACCGGTAAAGACGGTATGGGCAACGGCGACTTTAAGT
TAGTTGCCCTGTTTGGTGCCTGGTTGGGCTGGCAGTTACTGCCATTGCTTATTTTAATGGCATCAGCCGTTGGCGCGGTC
ATTGGTATTAGTTTAATGGTTTTTAAGAACCATCAGCGTGAGCAAGCCATTCCTTTCGGCCCATATTTAGCTATTGCAGG
TTGGATAACCCTACTTTGGGGAAACAGCATTTGGTCTTGGTATTTAAGTTCGCTAATTTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(14-124)

Type IV leader peptidase family (Peptidase_A24)

(134-243)


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

52.465

99.301

0.521
  pilD Acinetobacter baumannii D1279779

52.113

99.301

0.517
  pilD Vibrio campbellii strain DS40M4

52.857

97.902

0.517
  pilD Acinetobacter nosocomialis M2

51.761

99.301

0.514
  pilD Neisseria gonorrhoeae MS11

49.27

95.804

0.472

Multiple sequence alignment