Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   A3Q34_RS07290 Genome accession   NZ_CP014944
Coordinates   1722503..1723384 (+) Length   293 a.a.
NCBI ID   WP_231907447.1    Uniprot ID   -
Organism   Colwellia sp. PAMC 20917     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1717503..1728384
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A3Q34_RS07270 (A3Q34_07270) nadC 1717721..1718608 (+) 888 WP_157470874.1 carboxylating nicotinate-nucleotide diphosphorylase -
  A3Q34_RS21075 (A3Q34_07275) - 1718769..1719215 (+) 447 WP_070374761.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  A3Q34_RS07280 (A3Q34_07280) pilB 1719396..1721099 (+) 1704 WP_070374762.1 type IV-A pilus assembly ATPase PilB Machinery gene
  A3Q34_RS07285 (A3Q34_07285) pilC 1721184..1722434 (+) 1251 WP_070374763.1 type II secretion system F family protein Machinery gene
  A3Q34_RS07290 (A3Q34_07290) pilD 1722503..1723384 (+) 882 WP_231907447.1 A24 family peptidase Machinery gene
  A3Q34_RS07295 (A3Q34_07295) coaE 1723395..1724009 (+) 615 WP_070377048.1 dephospho-CoA kinase -
  A3Q34_RS07300 (A3Q34_07300) zapD 1724117..1724863 (+) 747 WP_070374765.1 cell division protein ZapD -
  A3Q34_RS07305 (A3Q34_07305) yacG 1724976..1725212 (+) 237 WP_070374766.1 DNA gyrase inhibitor YacG -
  A3Q34_RS07310 (A3Q34_07310) mutT 1725215..1725607 (-) 393 WP_070374767.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 293 a.a.        Molecular weight: 33026.26 Da        Isoelectric Point: 5.9090

>NTDB_id=175251 A3Q34_RS07290 WP_231907447.1 1722503..1723384(+) (pilD) [Colwellia sp. PAMC 20917]
MSEFIHLLESNSLFFYGFVFVFSLMIGSFLNVVIYRFPKMLEQGWYQECREFLADELKPSSTKQVELLTLSTPDSTCPHC
QHSIRFYENIPVVSWLMLKGKCSQCKNKISARYPLVELSTALLSLVIAQHFGVTMITCYALILTWGLIALTMIDFDHMLL
PDQIVLPLMWLGLIVNLSNGIVPLEDAVIGAIAGYTSLFAIFWLFKLATGKEGMGFGDFKLFALFGAWLGWQLLPLLILM
ASVVGAIIGISLMLFTSHQKDQAIPFGPYLAIAGWITLLWGENIWSWYLAQVL

Nucleotide


Download         Length: 882 bp        

>NTDB_id=175251 A3Q34_RS07290 WP_231907447.1 1722503..1723384(+) (pilD) [Colwellia sp. PAMC 20917]
TTGTCTGAATTTATTCATCTGTTAGAAAGTAACTCGCTGTTTTTTTATGGCTTTGTTTTTGTTTTCTCGTTAATGATAGG
TAGCTTTTTAAACGTAGTTATTTATCGTTTTCCAAAGATGTTAGAACAAGGTTGGTATCAAGAGTGTCGAGAATTTCTTG
CCGATGAGCTCAAGCCATCATCGACAAAGCAAGTAGAACTCCTTACTTTATCAACGCCCGATTCTACCTGTCCGCATTGC
CAACATAGCATTCGTTTTTATGAAAACATTCCTGTGGTTAGCTGGTTAATGTTGAAAGGAAAATGTAGCCAATGTAAAAA
TAAAATTTCTGCGCGTTATCCATTAGTTGAATTAAGTACCGCTTTATTGAGTTTAGTTATTGCTCAACATTTTGGTGTCA
CTATGATCACTTGTTACGCCTTAATATTGACGTGGGGCTTAATTGCCTTAACGATGATCGACTTTGATCATATGCTGCTC
CCCGACCAAATTGTTCTGCCATTGATGTGGTTAGGCTTAATCGTAAATCTATCAAATGGAATTGTGCCCTTAGAAGATGC
TGTTATCGGCGCCATTGCCGGCTACACTAGCCTTTTTGCTATTTTTTGGCTGTTCAAATTAGCTACCGGTAAAGAAGGCA
TGGGCTTTGGTGATTTTAAGCTGTTTGCACTCTTTGGTGCTTGGCTAGGTTGGCAATTATTACCCTTACTTATTTTAATG
GCATCAGTAGTCGGTGCCATTATCGGCATCAGTTTAATGCTTTTTACAAGTCATCAAAAAGATCAGGCGATTCCTTTTGG
CCCTTACCTTGCGATCGCAGGTTGGATCACACTTTTATGGGGTGAAAATATATGGTCTTGGTATTTAGCCCAAGTGCTTT
AG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(141-250)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-131)


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

55.319

96.246

0.532
  pilD Vibrio campbellii strain DS40M4

53.191

96.246

0.512
  pilD Acinetobacter baumannii D1279779

50.345

98.976

0.498
  pilD Acinetobacter nosocomialis M2

49.655

98.976

0.491
  pilD Neisseria gonorrhoeae MS11

47.08

93.515

0.44

Multiple sequence alignment