Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OOT55_RS08745 Genome accession   NZ_CP110629
Coordinates   2026658..2027521 (+) Length   287 a.a.
NCBI ID   WP_265368809.1    Uniprot ID   -
Organism   Marinimicrobium sp. C6131     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2021658..2032521
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OOT55_RS08730 (OOT55_08730) - 2022699..2023055 (-) 357 WP_416141001.1 pilin -
  OOT55_RS17850 - 2023070..2023184 (-) 115 Protein_1705 pilin -
  OOT55_RS08735 (OOT55_08735) pilB 2023640..2025367 (+) 1728 WP_265368704.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OOT55_RS08740 (OOT55_08740) pilC 2025373..2026647 (+) 1275 WP_265368705.1 type II secretion system F family protein Machinery gene
  OOT55_RS08745 (OOT55_08745) pilD 2026658..2027521 (+) 864 WP_265368809.1 prepilin peptidase Machinery gene
  OOT55_RS08750 (OOT55_08750) coaE 2027525..2028127 (+) 603 WP_265368706.1 dephospho-CoA kinase -
  OOT55_RS08755 (OOT55_08755) - 2028481..2031294 (+) 2814 WP_265368707.1 monovalent cation/H+ antiporter subunit A -
  OOT55_RS08760 (OOT55_08760) - 2031294..2031641 (+) 348 WP_265368708.1 Na+/H+ antiporter subunit C -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31440.51 Da        Isoelectric Point: 6.8272

>NTDB_id=755451 OOT55_RS08745 WP_265368809.1 2026658..2027521(+) (pilD) [Marinimicrobium sp. C6131]
MSEVFVLYPSVALISATVLGLLVGSFLNVVIYRLPRMLQSEWRSQCCELLEQSPPEPQKTFNLITPNSTCPHCGHGIKPW
ENVPVISYLVLRGKCSACKGRISARYPIIELVTGLLSVFVIHQFGVTGVGLAALVFTWSLIALTMIDIDTQLLPDVITLP
LLWLGLIVNHLGGFVPLEDALWGAVAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLGALGAWLGWQMLPLVVLLSSLVGAV
IGIGMMLILGRDKNIPIPFGPYLAIAGWIAFIWGDSLLQQYLQFAAP

Nucleotide


Download         Length: 864 bp        

>NTDB_id=755451 OOT55_RS08745 WP_265368809.1 2026658..2027521(+) (pilD) [Marinimicrobium sp. C6131]
ATATCCGAAGTTTTCGTTCTCTATCCCTCAGTGGCGCTCATCAGCGCCACTGTTTTAGGTCTGCTGGTTGGCAGTTTCCT
CAATGTGGTGATCTATCGCCTGCCCAGAATGCTCCAGTCGGAGTGGCGGTCGCAGTGCTGCGAGCTGCTGGAGCAGTCAC
CACCGGAACCGCAGAAAACATTCAACCTGATCACCCCCAATTCCACCTGCCCCCACTGCGGGCATGGGATCAAGCCCTGG
GAGAACGTGCCGGTAATCAGTTACCTGGTGCTGCGGGGCAAGTGCTCAGCCTGCAAAGGCCGGATTTCTGCCCGCTACCC
GATCATTGAGCTGGTGACGGGCCTGCTGAGCGTGTTTGTGATTCATCAGTTTGGCGTGACCGGCGTTGGCTTGGCGGCGC
TGGTATTCACCTGGTCGCTGATTGCGTTGACCATGATCGACATCGACACCCAGTTGCTGCCCGATGTGATCACTCTGCCA
TTGCTCTGGCTCGGGCTGATCGTCAACCATCTGGGGGGCTTTGTGCCACTGGAGGACGCCCTCTGGGGCGCGGTGGCGGG
CTACCTCTCGCTCTGGTCGATTTACTGGCTGTTCAAGCTGCTGACCGGCAAGGAAGGGATGGGCTACGGCGACTTCAAGC
TGCTGGGCGCACTGGGCGCCTGGCTCGGCTGGCAGATGCTGCCTTTGGTGGTGCTGCTGTCGTCCCTGGTGGGTGCGGTG
ATCGGCATCGGCATGATGCTGATCCTGGGCCGGGACAAGAACATTCCCATTCCCTTCGGCCCCTACCTGGCCATTGCGGG
CTGGATTGCCTTTATCTGGGGCGACAGCCTGCTCCAACAGTACCTTCAGTTCGCGGCTCCCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-124)

Type IV leader peptidase family (Peptidase_A24)

(134-243)


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

55.282

98.955

0.547
  pilD Vibrio campbellii strain DS40M4

54.417

98.606

0.537
  pilD Acinetobacter nosocomialis M2

53.71

98.606

0.53
  pilD Acinetobacter baumannii D1279779

53.71

98.606

0.53
  pilD Neisseria gonorrhoeae MS11

52.878

96.864

0.512