Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PY254_RS06560 Genome accession   NZ_CP119392
Coordinates   1543140..1543997 (-) Length   285 a.a.
NCBI ID   WP_281014674.1    Uniprot ID   -
Organism   Rhodanobacter sp. AS-Z3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1538140..1548997
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PY254_RS06535 (PY254_06535) lgt 1539131..1539943 (+) 813 WP_281014669.1 prolipoprotein diacylglyceryl transferase -
  PY254_RS06540 (PY254_06540) - 1540069..1540863 (+) 795 WP_281014670.1 thymidylate synthase -
  PY254_RS06545 (PY254_06545) - 1541008..1541496 (+) 489 WP_281014671.1 dihydrofolate reductase -
  PY254_RS06550 (PY254_06550) - 1541526..1542461 (+) 936 WP_281014672.1 Nudix family hydrolase -
  PY254_RS06555 (PY254_06555) coaE 1542523..1543143 (-) 621 WP_281014673.1 dephospho-CoA kinase -
  PY254_RS06560 (PY254_06560) pilD 1543140..1543997 (-) 858 WP_281014674.1 A24 family peptidase Machinery gene
  PY254_RS06565 (PY254_06565) pilC 1544135..1545406 (-) 1272 WP_281014675.1 type II secretion system F family protein Machinery gene
  PY254_RS06570 (PY254_06570) pilB 1545549..1547273 (-) 1725 WP_281014676.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PY254_RS06575 (PY254_06575) - 1547703..1548557 (+) 855 WP_281014677.1 glycosyltransferase family 2 protein -

Sequence

Protein


Download         Length: 285 a.a.        Molecular weight: 30961.05 Da        Isoelectric Point: 7.7897

>NTDB_id=798790 PY254_RS06560 WP_281014674.1 1543140..1543997(-) (pilD) [Rhodanobacter sp. AS-Z3]
MPELPFAVWIALAAVLGLLVGSFLNVVILRLPERMAAAWRREARDVLEIHADAEPLPPGIVREPSHCPHCKHPLSALDNI
PLLGWLLLGGRCRYCKTAISIQYPLVELLSGVLSAVIVWKFGPTWTGLAGLGFTWTLIALSGIDFRTQLLPDQLTFPLLW
LGLLLSLLPMFIDAPTAILAAAIGYLSLWSVYWAFKLLTGKEGMGHGDFKLLAALGAWMGPIAILPIVLLSSLIGAVVGG
SLIALRKHERDIPMPFGPFIAAAGWVWFVAGPNLLDGYLHLTGMR

Nucleotide


Download         Length: 858 bp        

>NTDB_id=798790 PY254_RS06560 WP_281014674.1 1543140..1543997(-) (pilD) [Rhodanobacter sp. AS-Z3]
ATGCCCGAACTTCCCTTCGCCGTCTGGATCGCCCTGGCCGCCGTACTGGGTCTGCTGGTGGGCAGCTTCCTCAACGTGGT
GATCTTGCGCCTGCCCGAACGCATGGCCGCCGCATGGCGACGCGAAGCGCGCGATGTACTGGAAATTCATGCCGACGCAG
AGCCCTTGCCGCCCGGCATCGTGCGCGAACCCTCGCACTGCCCGCATTGCAAACATCCATTATCAGCGCTGGACAACATC
CCGCTGCTTGGCTGGCTGCTGCTGGGCGGACGCTGCCGTTACTGCAAAACCGCCATCTCGATCCAGTATCCGCTGGTCGA
ACTGCTCAGCGGCGTGCTGAGCGCTGTGATCGTGTGGAAATTCGGACCCACCTGGACCGGGCTGGCCGGGCTGGGTTTCA
CCTGGACCTTGATTGCGCTTTCCGGCATCGATTTCCGTACCCAGTTACTGCCTGACCAGTTGACCTTCCCGCTGCTGTGG
CTGGGTTTGCTGTTGTCGCTGCTGCCGATGTTCATCGATGCACCCACGGCGATCCTCGCCGCCGCCATCGGCTATCTGAG
CCTGTGGAGCGTGTATTGGGCATTCAAACTGCTCACCGGCAAGGAGGGCATGGGCCACGGCGACTTCAAACTGCTGGCGG
CACTGGGCGCATGGATGGGGCCCATCGCGATCTTGCCGATCGTGCTGCTGTCATCGCTGATCGGCGCCGTGGTGGGCGGC
AGTCTGATTGCACTACGCAAGCATGAGCGTGACATCCCGATGCCCTTCGGGCCGTTCATCGCCGCTGCCGGCTGGGTCTG
GTTTGTCGCCGGGCCGAATTTGCTGGATGGCTATCTGCATCTGACCGGCATGCGATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(15-121)

Type IV leader peptidase family (Peptidase_A24)

(133-239)


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

50.368

95.439

0.481
  pilD Acinetobacter nosocomialis M2

49.638

96.842

0.481
  pilD Acinetobacter baumannii D1279779

49.275

96.842

0.477
  pilD Neisseria gonorrhoeae MS11

47.059

95.439

0.449
  pilD Vibrio campbellii strain DS40M4

46.014

96.842

0.446