Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SIC15_RS13475 Genome accession   NZ_CP138917
Coordinates   2947504..2948379 (+) Length   291 a.a.
NCBI ID   WP_412536164.1    Uniprot ID   -
Organism   Marinobacter sp. MIT932201     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2942504..2953379
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SIC15_RS13460 - 2943625..2944062 (-) 438 WP_412536161.1 pilin -
  SIC15_RS13465 pilB 2944473..2946188 (+) 1716 WP_412536162.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SIC15_RS13470 pilC 2946191..2947411 (+) 1221 WP_412536163.1 type II secretion system F family protein Machinery gene
  SIC15_RS13475 pilD 2947504..2948379 (+) 876 WP_412536164.1 prepilin peptidase Machinery gene
  SIC15_RS13480 coaE 2948455..2949054 (+) 600 WP_412536165.1 dephospho-CoA kinase -
  SIC15_RS13485 - 2949047..2950141 (+) 1095 WP_412536166.1 hypothetical protein -
  SIC15_RS13490 tsaA 2950195..2950938 (+) 744 WP_412536167.1 tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO -
  SIC15_RS13495 - 2950982..2953333 (+) 2352 WP_412536168.1 response regulator -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32186.33 Da        Isoelectric Point: 7.1828

>NTDB_id=905890 SIC15_RS13475 WP_412536164.1 2947504..2948379(+) (pilD) [Marinobacter sp. MIT932201]
MITLDAFLGTPWLLFLTVTLVSLCIGSFLNVVILRLPKMMHQDWRCQCEEFLELPEKQRKQEERITLSKPASTCPSCGHG
IRAWENIPVVSWLVLRGKCASCKAPISPRYPIIEAVTAIFSVVTIAVIGPNESALWALLLVWALVALTVIDFDTQLLPDS
ITLPLMWLGLVLNYFGVLTDFNSAFWGAVAGYLSLWSVYWLFKLVTGKEGMGHGDFKLLAALGAWLGWQLLPAVILLSSV
VGAVVGISLMVFRKHGREVPIPFGPYLATAGLICLWFGSEIQAFWFGFLGV

Nucleotide


Download         Length: 876 bp        

>NTDB_id=905890 SIC15_RS13475 WP_412536164.1 2947504..2948379(+) (pilD) [Marinobacter sp. MIT932201]
ATGATTACTCTGGACGCTTTTCTCGGCACGCCCTGGCTTCTCTTTCTTACAGTCACCCTCGTTTCCCTCTGCATCGGCAG
CTTCCTGAATGTTGTCATTCTCAGGCTGCCAAAAATGATGCACCAGGATTGGCGCTGTCAGTGCGAGGAATTCCTGGAAC
TGCCGGAGAAGCAGCGCAAACAGGAAGAGCGAATTACGCTCTCCAAACCGGCTTCCACCTGCCCCTCGTGCGGCCACGGC
ATTCGGGCTTGGGAGAATATACCGGTAGTCAGTTGGCTGGTTCTTCGGGGCAAATGCGCTTCTTGTAAGGCGCCTATCTC
GCCCCGTTATCCGATCATCGAGGCCGTTACCGCGATTTTCTCGGTGGTTACCATTGCTGTCATCGGGCCGAACGAGTCGG
CGCTTTGGGCCCTTTTGCTGGTTTGGGCACTGGTGGCTCTGACCGTTATTGATTTCGATACCCAGTTATTGCCAGATAGC
ATTACTCTGCCATTGATGTGGCTGGGCCTGGTGCTGAATTATTTTGGTGTGCTTACGGACTTCAACAGTGCCTTTTGGGG
TGCGGTGGCCGGGTATCTCTCGTTGTGGTCGGTTTACTGGCTGTTCAAGCTGGTCACCGGCAAGGAAGGTATGGGGCATG
GAGACTTTAAATTGCTCGCTGCGCTGGGTGCGTGGCTGGGGTGGCAGTTGTTGCCGGCGGTGATTCTGCTTTCTTCGGTG
GTTGGTGCGGTTGTGGGCATCAGCCTGATGGTGTTCAGGAAGCATGGACGCGAGGTGCCGATTCCGTTTGGGCCTTACCT
GGCGACGGCGGGGCTGATCTGTTTGTGGTTTGGGAGTGAGATTCAGGCGTTTTGGTTTGGGTTTTTGGGGGTTTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-125)

Type IV leader peptidase family (Peptidase_A24)

(138-247)


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

56.204

94.158

0.529
  pilD Acinetobacter nosocomialis M2

55.474

94.158

0.522
  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