Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   C6H38_RS24285 Genome accession   NZ_LT963402
Coordinates   5094839..5095711 (+) Length   290 a.a.
NCBI ID   WP_058417675.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. avii isolate CFBP3846     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5089839..5100711
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C6H38_RS24265 (CFBP3846_04657) - 5089846..5091084 (-) 1239 WP_080395287.1 O-antigen ligase family protein -
  C6H38_RS24270 - 5091314..5091697 (-) 384 WP_080395286.1 pilin -
  C6H38_RS24275 (CFBP3846_04659) pilB 5091923..5093617 (+) 1695 WP_060412774.1 type IV-A pilus assembly ATPase PilB Machinery gene
  C6H38_RS24280 (CFBP3846_04660) pilC 5093620..5094837 (+) 1218 WP_060412773.1 type II secretion system F family protein Machinery gene
  C6H38_RS24285 (CFBP3846_04661) pilD 5094839..5095711 (+) 873 WP_058417675.1 prepilin peptidase Machinery gene
  C6H38_RS24290 (CFBP3846_04662) coaE 5095708..5096331 (+) 624 WP_057418267.1 dephospho-CoA kinase -
  C6H38_RS24295 (CFBP3846_04663) yacG 5096328..5096537 (+) 210 WP_003381207.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31979.22 Da        Isoelectric Point: 8.1603

>NTDB_id=1148828 C6H38_RS24285 WP_058417675.1 5094839..5095711(+) (pilD) [Pseudomonas syringae pv. avii isolate CFBP3846]
MPLLDLLASSPLAFVITCCLLGLIVGSFLNVVVYRLPKMMERDWKAQSREMLGLPAEPDQPVFNLILPHSSCPHCAHKIR
PWENLPVISYLLLRGKCSHCKASISKRYPLVELTCAVLSAYVAWHFGFGWQAAAMLVLSWGLLAMSLIDADHQLLPDSLV
LPLLWLGLIVNAFGLFTSLSDALWGAVAGYLTLWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AVLGVIMMRVRRVESGTPIPFGPYLAIAGWIALLWGGQITDSYMQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1148828 C6H38_RS24285 WP_058417675.1 5094839..5095711(+) (pilD) [Pseudomonas syringae pv. avii isolate CFBP3846]
ATGCCCCTCCTCGACCTCCTGGCCAGCTCTCCCCTGGCCTTCGTCATCACCTGCTGCCTACTTGGCCTGATCGTCGGAAG
CTTCCTCAACGTAGTCGTCTACCGCCTCCCAAAAATGATGGAGCGCGACTGGAAAGCGCAATCACGGGAAATGCTCGGCC
TCCCTGCCGAACCGGACCAACCGGTCTTCAACCTGATACTCCCCCACTCCAGTTGCCCGCACTGCGCGCACAAGATCCGC
CCATGGGAAAACTTGCCGGTCATCAGCTACCTGTTGCTGCGGGGCAAATGCTCACACTGCAAAGCCTCCATAAGCAAGCG
CTACCCGTTGGTAGAACTGACCTGCGCAGTGTTGTCGGCCTACGTCGCCTGGCATTTCGGCTTCGGCTGGCAGGCGGCTG
CGATGCTGGTGTTGAGCTGGGGTTTGCTGGCGATGAGTCTGATCGATGCCGATCATCAGCTGTTACCTGACTCTTTGGTG
CTGCCACTGCTTTGGCTGGGCCTGATCGTTAACGCCTTTGGGCTGTTCACCTCGCTGAGCGACGCGCTGTGGGGTGCAGT
GGCCGGTTATCTGACGCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACGGGCAAGGAAGGCATGGGCTATGGCGACT
TCAAGTTGCTGGCCATGCTTGGCGCGTGGGGTGGCTGGCAGATTCTGCCGTTGACCATTCTGCTGTCGTCACTGGTGGGT
GCGGTGCTTGGGGTGATCATGATGCGCGTGCGCAGGGTCGAAAGTGGTACGCCGATCCCCTTTGGTCCTTATCTGGCCAT
TGCGGGGTGGATCGCTTTGCTCTGGGGTGGTCAAATAACCGACTCTTATATGCAGTTTGCCGGTTTCAGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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

54.77

97.586

0.534
  pilD Vibrio campbellii strain DS40M4

51.943

97.586

0.507
  pilD Acinetobacter baumannii D1279779

52.92

94.483

0.5
  pilD Acinetobacter nosocomialis M2

52.19

94.483

0.493
  pilD Neisseria gonorrhoeae MS11

51.866

92.414

0.479

Multiple sequence alignment