Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PSPPH_RS04195 Genome accession   NC_005773
Coordinates   978606..979478 (-) Length   290 a.a.
NCBI ID   WP_011167726.1    Uniprot ID   Q48NC1
Organism   Pseudomonas savastanoi pv. phaseolicola 1448A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 973606..984478
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSPPH_RS04185 (PSPPH_0816) yacG 977780..977989 (-) 210 WP_007251656.1 DNA gyrase inhibitor YacG -
  PSPPH_RS04190 (PSPPH_0817) coaE 977986..978609 (-) 624 WP_011167725.1 dephospho-CoA kinase -
  PSPPH_RS04195 (PSPPH_0818) pilD 978606..979478 (-) 873 WP_011167726.1 prepilin peptidase Machinery gene
  PSPPH_RS04200 (PSPPH_0819) pilC 979480..980697 (-) 1218 WP_011167727.1 type II secretion system F family protein Machinery gene
  PSPPH_RS04205 (PSPPH_0820) pilB 980700..982394 (-) 1695 WP_011167728.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSPPH_RS27995 (PSPPH_0821) - 982619..983014 (+) 396 WP_011167729.1 pilin -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32059.31 Da        Isoelectric Point: 8.7845

>NTDB_id=23208 PSPPH_RS04195 WP_011167726.1 978606..979478(-) (pilD) [Pseudomonas savastanoi pv. phaseolicola 1448A]
MPLLDLLASSPLAFVITCCILGLIIGSFLNVVVYRLPKMMERDWKAQSREMLGLPAEPDQPAFNLNRPRSSCPRCAHKIR
PWENLPVISYLLLRGKCSQCKAPISKRYPLVELTCAVLSAYIAWHFGFGWQAAAMLVLSWGLLAMSLIDADHQLLPDSLV
LPLLWLGLIVNAFGLFTSLNDALWGAVAGYLALWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AVLGVIMMRVRRVESGTPIPFGPYLAIAGWIALLWGGQITDSYMQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=23208 PSPPH_RS04195 WP_011167726.1 978606..979478(-) (pilD) [Pseudomonas savastanoi pv. phaseolicola 1448A]
ATGCCCCTCCTCGACCTCTTGGCCAGCTCACCGCTGGCCTTCGTCATTACCTGCTGCATTCTCGGCCTGATCATCGGAAG
CTTCCTCAACGTAGTCGTCTACCGCCTCCCCAAAATGATGGAGCGCGACTGGAAAGCCCAATCCCGTGAAATGCTCGGCC
TGCCCGCGGAACCCGATCAGCCCGCCTTCAACCTGAACCGCCCTCGCTCCAGCTGCCCGCGCTGCGCGCACAAAATCCGC
CCGTGGGAAAACCTGCCGGTCATCAGCTATCTGCTGCTGCGCGGTAAATGCTCACAATGCAAAGCCCCGATCAGCAAACG
CTACCCATTGGTAGAGCTGACCTGCGCAGTGTTGTCGGCCTACATCGCCTGGCATTTCGGCTTCGGCTGGCAGGCAGCGG
CGATGCTGGTGTTGAGCTGGGGCCTGCTGGCGATGAGTCTGATCGACGCCGATCACCAGCTGTTACCTGACTCTCTGGTG
CTGCCACTGCTGTGGCTGGGCCTGATCGTAAACGCTTTCGGGCTGTTCACCTCGCTGAACGATGCGCTGTGGGGCGCGGT
GGCCGGCTATCTGGCGCTGTGGTCGGTGTTCTGGCTATTCAAACTGGTGACCGGCAAGGAAGGCATGGGTTATGGCGACT
TCAAGTTGCTGGCCATGCTTGGCGCATGGGGCGGCTGGCAGATTCTGCCGTTGACCATCCTGCTGTCATCGCTGGTGGGT
GCGGTGCTTGGGGTGATCATGATGCGCGTGCGCAGGGTTGAAAGTGGTACGCCGATCCCCTTTGGTCCTTATCTGGCCAT
TGCGGGGTGGATCGCTTTGCTCTGGGGTGGTCAAATAACCGACTCTTACATGCAGTTTGCCGGTTTCAGATGA

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
  AlphaFold DB Q48NC1

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

53.521

97.931

0.524
  pilD Vibrio campbellii strain DS40M4

53.004

97.586

0.517
  pilD Acinetobacter baumannii D1279779

53.285

94.483

0.503
  pilD Acinetobacter nosocomialis M2

52.19

94.483

0.493
  pilD Neisseria gonorrhoeae MS11

51.119

92.414

0.472

Multiple sequence alignment