Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PSH69_RS25515 Genome accession   NZ_CP117461
Coordinates   5690099..5690971 (+) Length   290 a.a.
NCBI ID   WP_096479536.1    Uniprot ID   -
Organism   Pseudomonas sp. FP1740     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5685099..5695971
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSH69_RS25485 (PSH69_25475) - 5685127..5685423 (+) 297 WP_305410172.1 DUF2845 domain-containing protein -
  PSH69_RS25490 (PSH69_25480) - 5685597..5685953 (-) 357 WP_305410173.1 BON domain-containing protein -
  PSH69_RS25495 (PSH69_25485) - 5686236..5686406 (-) 171 Protein_5037 IS110 family transposase -
  PSH69_RS25500 (PSH69_25490) - 5686531..5686950 (-) 420 WP_305410174.1 pilin -
  PSH69_RS25505 (PSH69_25495) pilB 5687177..5688877 (+) 1701 WP_305410175.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSH69_RS25510 (PSH69_25500) pilC 5688880..5690097 (+) 1218 WP_305410176.1 type II secretion system F family protein Machinery gene
  PSH69_RS25515 (PSH69_25505) pilD 5690099..5690971 (+) 873 WP_096479536.1 A24 family peptidase Machinery gene
  PSH69_RS25520 (PSH69_25510) coaE 5690968..5691591 (+) 624 WP_026286732.1 dephospho-CoA kinase -
  PSH69_RS25525 (PSH69_25515) yacG 5691588..5691788 (+) 201 WP_305410177.1 DNA gyrase inhibitor YacG -
  PSH69_RS25530 (PSH69_25520) - 5691798..5692013 (-) 216 WP_007938959.1 hypothetical protein -
  PSH69_RS25535 (PSH69_25525) - 5692077..5692766 (-) 690 WP_305410178.1 energy-coupling factor ABC transporter permease -
  PSH69_RS25540 (PSH69_25530) - 5693096..5694199 (+) 1104 WP_305412872.1 AI-2E family transporter -
  PSH69_RS25545 (PSH69_25535) - 5694222..5694653 (+) 432 WP_305410179.1 potassium channel family protein -
  PSH69_RS25550 (PSH69_25540) - 5694680..5695147 (-) 468 WP_305410180.1 FAD/FMN-containing dehydrogenase -
  PSH69_RS25555 (PSH69_25545) - 5695276..5695902 (+) 627 WP_007938395.1 DUF1780 domain-containing protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32168.39 Da        Isoelectric Point: 7.6846

>NTDB_id=785733 PSH69_RS25515 WP_096479536.1 5690099..5690971(+) (pilD) [Pseudomonas sp. FP1740]
MSLNEFLSLNPLAFVITAGVIGLLIGSFLNVVVWRLPKMLEREWRLQAHDVLDLPAEAPGPTYNLILPHSECPHCGHRIR
VWENIPILSYLFLRGRCSSCAAPISKRYPLTELACGLLSAFVAWHFGFGWQACMVLVLSWGLLAMSLIDAEHQLLPDVLV
MPLMWLGLVLNSFGLFVSLHDAFWGAVAGYMALWTVFWLFKLVTGKDGIGYGDFKLLAMLGAWGGWQILPMTILLSSLVG
AILGVILLRLRDAKTSTPLPFGPYLAIAGWIALLWGGQITGFYWQFVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=785733 PSH69_RS25515 WP_096479536.1 5690099..5690971(+) (pilD) [Pseudomonas sp. FP1740]
ATGTCCTTGAACGAATTTCTGAGCCTCAACCCGCTGGCCTTCGTGATTACCGCAGGGGTAATCGGCCTGTTGATCGGCAG
TTTTCTCAACGTGGTGGTCTGGCGCCTGCCGAAAATGCTTGAGCGTGAATGGCGCCTGCAGGCCCATGACGTACTGGACT
TGCCAGCCGAAGCCCCCGGCCCGACCTACAACCTGATACTGCCCCACTCCGAGTGTCCTCACTGCGGCCATCGGATTCGA
GTGTGGGAGAACATTCCAATACTCAGTTATCTGTTTTTACGTGGGCGATGCTCGAGCTGCGCAGCGCCGATCAGTAAACG
TTACCCGCTGACCGAATTGGCCTGCGGCCTGCTGTCGGCGTTCGTTGCCTGGCATTTCGGTTTCGGCTGGCAGGCCTGCA
TGGTGCTGGTCCTGAGTTGGGGCTTGCTGGCGATGAGCCTGATCGATGCCGAACATCAACTGTTGCCGGACGTACTGGTG
ATGCCGTTGATGTGGCTGGGACTGGTCCTCAACAGCTTCGGGCTCTTCGTATCACTGCATGACGCGTTCTGGGGCGCGGT
GGCCGGCTACATGGCGCTGTGGACGGTGTTCTGGCTGTTCAAGCTGGTCACCGGCAAGGACGGCATCGGTTACGGCGATT
TCAAGCTCCTGGCGATGCTCGGCGCCTGGGGCGGCTGGCAGATCCTGCCCATGACCATTCTGCTGTCATCGCTGGTAGGA
GCCATTCTCGGGGTGATTTTGCTGCGCCTGCGGGATGCGAAAACCTCGACGCCGCTACCCTTTGGACCCTATCTGGCCAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGGCTTCTATTGGCAGTTTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


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

52.837

97.241

0.514
  pilD Vibrio campbellii strain DS40M4

51.773

97.241

0.503
  pilD Acinetobacter baumannii D1279779

48.913

95.172

0.466
  pilD Acinetobacter nosocomialis M2

48.375

95.517

0.462
  pilD Neisseria gonorrhoeae MS11

48.148

93.103

0.448