Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   P3R38_RS21435 Genome accession   NZ_CP120626
Coordinates   4677735..4678601 (+) Length   288 a.a.
NCBI ID   WP_023382439.1    Uniprot ID   A0A964GN15
Organism   Pseudomonas sp. NyZ480     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4672735..4683601
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  P3R38_RS21415 (P3R38_21415) - 4674268..4675590 (-) 1323 WP_038410338.1 integrase arm-type DNA-binding domain-containing protein -
  P3R38_RS21425 (P3R38_21425) - 4675899..4676309 (-) 411 WP_023382437.1 pilin -
  P3R38_RS21430 (P3R38_21430) - 4676524..4677732 (+) 1209 WP_277686586.1 type II secretion system F family protein -
  P3R38_RS21435 (P3R38_21435) pilD 4677735..4678601 (+) 867 WP_023382439.1 A24 family peptidase Machinery gene
  P3R38_RS21440 (P3R38_21440) coaE 4678601..4679224 (+) 624 WP_023382440.1 dephospho-CoA kinase -
  P3R38_RS21445 (P3R38_21445) yacG 4679221..4679421 (+) 201 WP_023382441.1 DNA gyrase inhibitor YacG -
  P3R38_RS21450 (P3R38_21450) - 4679557..4680207 (-) 651 WP_049818811.1 energy-coupling factor ABC transporter permease -
  P3R38_RS21455 (P3R38_21455) - 4680346..4680975 (+) 630 WP_023382443.1 DUF1780 domain-containing protein -
  P3R38_RS21460 (P3R38_21460) - 4681108..4681281 (+) 174 WP_023382444.1 DUF3094 family protein -
  P3R38_RS21465 (P3R38_21465) - 4681366..4682661 (+) 1296 WP_023382445.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31781.18 Da        Isoelectric Point: 8.1737

>NTDB_id=807250 P3R38_RS21435 WP_023382439.1 4677735..4678601(+) (pilD) [Pseudomonas sp. NyZ480]
MTLWTFLAAQPAYLMTLAALLGLLVGSFLNVLVHRLPIMLERQWQREAQQVLGLPTSVHERFDLCLPASRCPGCGHPIRA
WENIPVLSYLALRGRCSACKCRISPRYPLVELACAAVSLVVAWHGGSAAQLLLLLLLTWCLLALSLIDIEHQLLPDVLVL
PMLWLGLIANAFHTFVPLSHALWGAIAGYLCLWSVYWVFKLLTGKEGMGYGDFKLLALIGAWGGWQVLPLTLLLSSVLGV
LVGLCLLRVRRQSLSTTLPFGPYLAIAGWIALLWGDEIYASYMQLLGL

Nucleotide


Download         Length: 867 bp        

>NTDB_id=807250 P3R38_RS21435 WP_023382439.1 4677735..4678601(+) (pilD) [Pseudomonas sp. NyZ480]
ATGACTTTATGGACTTTCCTGGCTGCGCAGCCGGCTTACCTGATGACCTTGGCCGCCCTCCTGGGGTTGCTGGTCGGCAG
CTTTCTGAACGTGTTGGTGCACCGCCTGCCGATCATGCTCGAACGCCAATGGCAGCGCGAAGCACAGCAGGTGCTGGGGC
TGCCGACCTCGGTGCATGAACGCTTCGACCTGTGCCTGCCGGCCTCCCGCTGCCCGGGCTGCGGGCACCCGATTCGTGCC
TGGGAAAACATCCCGGTGCTGAGTTACCTGGCCCTGCGTGGGCGCTGCTCGGCGTGCAAGTGCCGCATCAGCCCGCGTTA
TCCACTGGTGGAGCTGGCGTGCGCGGCCGTGTCGCTGGTGGTGGCGTGGCATGGCGGCAGTGCCGCGCAACTGCTGTTGC
TACTGTTGCTCACCTGGTGCCTGCTGGCCTTGAGCCTGATCGATATCGAACACCAGTTGCTGCCCGACGTGCTGGTGCTG
CCAATGCTGTGGCTAGGCTTGATCGCCAATGCCTTCCACACCTTCGTACCCCTGAGCCATGCGCTGTGGGGCGCGATTGC
GGGTTACCTCTGCCTGTGGAGCGTGTACTGGGTGTTCAAGCTGCTGACCGGCAAGGAGGGCATGGGCTATGGGGACTTCA
AGCTGCTGGCGTTGATCGGCGCCTGGGGCGGGTGGCAGGTGCTGCCGCTGACCTTGCTGTTGTCATCGGTGCTGGGGGTG
CTGGTTGGCCTGTGCCTGCTGCGTGTGCGTCGGCAATCGCTGAGTACGACGTTGCCGTTTGGGCCTTATCTGGCCATTGC
AGGGTGGATTGCGTTGCTCTGGGGTGATGAAATATACGCCTCTTACATGCAACTACTGGGACTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

54.945

94.792

0.521
  pilD Acinetobacter baumannii D1279779

51.493

93.056

0.479
  pilD Vibrio campbellii strain DS40M4

49.64

96.528

0.479
  pilD Acinetobacter nosocomialis M2

50.746

93.056

0.472
  pilD Neisseria gonorrhoeae MS11

47.955

93.403

0.448