Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACGK9W_RS09940 Genome accession   NZ_CP171359
Coordinates   2123112..2123987 (+) Length   291 a.a.
NCBI ID   WP_405420754.1    Uniprot ID   -
Organism   Marinobacter flavimaris strain ZYH30     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2118112..2128987
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACGK9W_RS09925 (ACGK9W_09925) - 2119205..2119678 (-) 474 WP_405420746.1 pilin -
  ACGK9W_RS09930 (ACGK9W_09930) pilB 2120107..2121822 (+) 1716 WP_405420749.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACGK9W_RS09935 (ACGK9W_09935) pilC 2121825..2123045 (+) 1221 WP_405420751.1 type II secretion system F family protein Machinery gene
  ACGK9W_RS09940 (ACGK9W_09940) pilD 2123112..2123987 (+) 876 WP_405420754.1 prepilin peptidase Machinery gene
  ACGK9W_RS09945 (ACGK9W_09945) coaE 2123988..2124587 (+) 600 WP_405420757.1 dephospho-CoA kinase -
  ACGK9W_RS09950 (ACGK9W_09950) - 2124580..2125674 (+) 1095 WP_405421032.1 hypothetical protein -
  ACGK9W_RS09955 (ACGK9W_09955) tsaA 2125674..2126417 (+) 744 WP_405420760.1 tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO -
  ACGK9W_RS09960 (ACGK9W_09960) - 2126461..2128812 (+) 2352 WP_405420763.1 response regulator -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32273.40 Da        Isoelectric Point: 7.1823

>NTDB_id=1060868 ACGK9W_RS09940 WP_405420754.1 2123112..2123987(+) (pilD) [Marinobacter flavimaris strain ZYH30]
MLSLETFLANPWLLYLTVTLVSLCIGSFLNVVILRLPKMMHQDWRCQCEEFLELPDKQRKQEERITLSKPASTCPSCGHG
IRAWENIPVVSWLILRGKCASCKAPISPRYPIIEAVTAIFSVVTIAVIGPNESALWALLLVWALVALTVIDFDTQLLPDS
ITLPLMWLGLVLNYFGVLTDFNSAFWGAVAGYLSLWSVYWLFKLVTGKEGMGHGDFKLLAALGAWLGWQLLPAVILLSSV
VGAVLGISLMVFRKHGREVPIPFGPYLATAGLICLWFGSEIQAFWFGFLGV

Nucleotide


Download         Length: 876 bp        

>NTDB_id=1060868 ACGK9W_RS09940 WP_405420754.1 2123112..2123987(+) (pilD) [Marinobacter flavimaris strain ZYH30]
ATGTTAAGTCTCGAAACCTTTCTTGCCAATCCGTGGCTCCTTTATCTCACTGTCACCCTCGTATCCCTCTGCATCGGCAG
TTTCCTGAATGTTGTCATTCTGAGGCTGCCGAAAATGATGCACCAGGACTGGCGCTGCCAGTGCGAGGAATTCCTGGAGC
TGCCGGACAAGCAGCGAAAGCAGGAAGAACGGATTACGCTTTCCAAACCGGCTTCCACCTGCCCTTCCTGCGGCCATGGC
ATTCGGGCTTGGGAGAATATTCCGGTGGTCAGCTGGCTGATTCTTCGGGGCAAATGCGCTTCCTGCAAGGCACCGATCTC
GCCCCGTTATCCGATCATTGAGGCCGTCACCGCGATTTTCTCGGTGGTGACCATTGCTGTCATTGGGCCGAATGAGTCTG
CGCTTTGGGCGCTTTTGCTGGTTTGGGCTCTGGTTGCCCTGACAGTTATCGATTTTGACACTCAGCTTCTGCCGGATAGC
ATCACCCTGCCCCTGATGTGGCTGGGCCTTGTGCTGAACTATTTTGGTGTGCTGACGGACTTTAATAGTGCCTTTTGGGG
TGCGGTGGCCGGGTATCTCTCGCTTTGGTCGGTTTATTGGCTGTTTAAGCTGGTTACCGGCAAGGAAGGCATGGGGCATG
GTGACTTCAAGCTGCTCGCTGCGCTCGGTGCGTGGCTGGGATGGCAGTTGTTGCCGGCGGTGATTTTGCTCTCCTCGGTG
GTTGGTGCGGTTCTGGGTATTAGTTTGATGGTGTTCAGGAAGCATGGGCGCGAGGTGCCTATTCCTTTCGGGCCTTACCT
GGCGACGGCGGGGTTGATTTGTTTGTGGTTTGGGAGTGAGATTCAGGCGTTTTGGTTTGGGTTTTTAGGGGTTTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-125)


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 Acinetobacter baumannii D1279779

55.16

96.564

0.533
  pilD Acinetobacter nosocomialis M2

54.448

96.564

0.526
  pilD Vibrio campbellii strain DS40M4

51.93

97.938

0.509
  pilD Vibrio cholerae strain A1552

51.93

97.938

0.509
  pilD Neisseria gonorrhoeae MS11

49.606

87.285

0.433

Multiple sequence alignment