Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QSH61_RS04885 Genome accession   NZ_CP127855
Coordinates   1193707..1194585 (-) Length   292 a.a.
NCBI ID   WP_206471305.1    Uniprot ID   -
Organism   Pseudoalteromonas sp. JC3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1188707..1199585
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QSH61_RS04860 (QSH61_04860) - 1188738..1189376 (+) 639 WP_045989837.1 alpha/beta family hydrolase -
  QSH61_RS04865 (QSH61_04865) - 1189369..1189737 (+) 369 WP_206471301.1 DUF423 domain-containing protein -
  QSH61_RS04870 (QSH61_04870) rlmM 1189751..1190836 (+) 1086 WP_206471302.1 23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM -
  QSH61_RS04875 (QSH61_04875) pilB 1191282..1192958 (-) 1677 WP_206471303.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QSH61_RS04880 (QSH61_04880) coaE 1193068..1193697 (-) 630 WP_206471304.1 dephospho-CoA kinase -
  QSH61_RS04885 (QSH61_04885) pilD 1193707..1194585 (-) 879 WP_206471305.1 A24 family peptidase Machinery gene
  QSH61_RS04890 (QSH61_04890) pilC 1194720..1195937 (-) 1218 WP_206471306.1 type II secretion system F family protein Machinery gene
  QSH61_RS04895 (QSH61_04895) - 1195976..1196419 (-) 444 WP_206471307.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  QSH61_RS04900 (QSH61_04900) nadC 1197089..1197931 (-) 843 WP_130126786.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32551.85 Da        Isoelectric Point: 5.2046

>NTDB_id=844791 QSH61_RS04885 WP_206471305.1 1193707..1194585(-) (pilD) [Pseudoalteromonas sp. JC3]
MQDIINLMQTQLWYWLLTVGLVSLCIGSFLNVVILRLPKMMKQSWQSECRVLLADELPTQTAEAPVFNLIKPNSHCPSCK
TPIKAWQNIPLISWLLLKGKCNHCDASISVRYPLVELTTALLSIWVAWYFGATLEATLYILITWVLVALTVIDIDEMLLP
DQLTQPTLWLVLVASCFGVGIEPNDAIIGAAIGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAIFGALMGWQAILTIVLLS
SLVGAIIGSIQLSVQGRDKATPIPFGPYLAIAGWITLMYGEQLQLWYVNLIM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=844791 QSH61_RS04885 WP_206471305.1 1193707..1194585(-) (pilD) [Pseudoalteromonas sp. JC3]
ATGCAAGATATTATCAACTTGATGCAAACCCAGTTATGGTATTGGTTACTCACCGTCGGACTCGTCAGCCTTTGCATCGG
TAGCTTTCTCAATGTGGTTATTCTTCGCTTACCTAAAATGATGAAGCAGAGCTGGCAATCAGAATGTCGCGTGTTGCTTG
CCGATGAGCTACCAACACAAACCGCTGAAGCACCCGTGTTTAATTTAATTAAACCAAATTCTCATTGCCCCAGCTGCAAA
ACGCCGATTAAAGCGTGGCAAAACATTCCACTGATCAGCTGGCTATTATTAAAAGGCAAATGCAACCACTGCGACGCGTC
AATCTCTGTCCGCTATCCTTTGGTGGAGCTAACAACCGCCCTACTCTCCATATGGGTTGCGTGGTATTTTGGTGCCACTT
TAGAAGCCACTCTATATATTTTGATTACTTGGGTATTAGTCGCACTTACGGTTATCGATATCGACGAAATGTTACTGCCT
GATCAGTTAACGCAACCAACTTTATGGTTAGTGTTGGTTGCCAGTTGTTTTGGTGTTGGCATTGAGCCCAATGATGCCAT
CATTGGTGCGGCCATAGGCTATTTGAGTTTATGGAGTGTGTATTGGCTCTTTAAATTACTCACAGGTAAAGAAGGCATGG
GCTATGGCGACTTTAAACTGCTAGCCATCTTTGGGGCATTGATGGGCTGGCAAGCAATCTTAACCATAGTGCTACTTTCA
AGCCTGGTCGGCGCAATCATTGGTAGCATCCAATTAAGTGTTCAAGGCCGAGATAAAGCCACCCCAATCCCATTTGGCCC
TTACTTAGCCATCGCAGGCTGGATCACCCTAATGTACGGCGAGCAGCTACAGCTGTGGTACGTAAACTTAATAATGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(141-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-130)


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 Acinetobacter baumannii D1279779

53.287

98.973

0.527
  pilD Acinetobacter nosocomialis M2

53.287

98.973

0.527
  pilD Vibrio cholerae strain A1552

51.786

95.89

0.497
  pilD Vibrio campbellii strain DS40M4

49.828

99.658

0.497
  pilD Neisseria gonorrhoeae MS11

43.182

90.411

0.39