Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   D1819_RS00215 Genome accession   NZ_CP031961
Coordinates   38921..39826 (-) Length   301 a.a.
NCBI ID   WP_232284995.1    Uniprot ID   -
Organism   Pseudoalteromonas tunicata strain D2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 33921..44826
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D1819_RS00195 (D1819_00195) - 35097..36014 (+) 918 WP_009838311.1 histone deacetylase family protein -
  D1819_RS00200 (D1819_00200) yacG 36128..36367 (-) 240 WP_009838312.1 DNA gyrase inhibitor YacG -
  D1819_RS00205 (D1819_00205) pilB 36438..38120 (-) 1683 WP_009838313.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D1819_RS00210 (D1819_00210) coaE 38268..38885 (-) 618 WP_009838314.1 dephospho-CoA kinase -
  D1819_RS00215 (D1819_00215) pilD 38921..39826 (-) 906 WP_232284995.1 prepilin peptidase Machinery gene
  D1819_RS00220 (D1819_00220) pilC 39846..41084 (-) 1239 WP_009838316.1 type II secretion system F family protein Machinery gene
  D1819_RS00225 (D1819_00225) pilB 41181..42884 (-) 1704 WP_009838317.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D1819_RS22035 - 43235..43340 (-) 106 Protein_46 pilin -
  D1819_RS00235 (D1819_00235) nadC 43886..44776 (-) 891 WP_009838319.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 301 a.a.        Molecular weight: 33113.51 Da        Isoelectric Point: 4.9265

>NTDB_id=312878 D1819_RS00215 WP_232284995.1 38921..39826(-) (pilD) [Pseudoalteromonas tunicata strain D2]
MLQELITLYQQQACFFYLTIALVSLAVGSFLNVVIYRLPVMMQNEWQQDCRLLLEDELPKNQLDANNTETPATIFNLAVP
ASTCPKCSSKIKAWQNIPVISWLILRGKCAYCKNPISMRYPSIELLTMVASLTVAAVLGVTEQTVLYLGVTWALIALIFI
DIDHMLLPDQITLPLLWLGLLASIFGLTIEPAQAIIGAALGYLSFWSVYWLFKLATGKEGMGYGDFKLMAVFGALLGWQA
LPMIILLSSLVGAVIGITLLSIQGKDKATPIPFGPYIAIAGWVAILWGTEISIAYYSLILA

Nucleotide


Download         Length: 906 bp        

>NTDB_id=312878 D1819_RS00215 WP_232284995.1 38921..39826(-) (pilD) [Pseudoalteromonas tunicata strain D2]
ATGCTGCAAGAGCTGATTACGCTTTACCAACAACAGGCCTGTTTTTTTTACTTAACGATTGCCCTCGTATCACTTGCGGT
AGGTAGTTTTTTAAATGTGGTGATCTATCGCTTACCTGTGATGATGCAAAATGAATGGCAACAGGATTGCCGCTTACTGT
TAGAAGACGAGCTACCTAAAAATCAGCTCGATGCAAACAATACCGAAACGCCAGCAACCATCTTTAATCTTGCAGTGCCT
GCCTCAACCTGCCCAAAATGCAGCAGTAAAATTAAAGCGTGGCAAAATATCCCGGTAATTAGCTGGCTGATATTGCGCGG
CAAATGTGCGTATTGCAAAAACCCAATATCAATGCGCTACCCGAGCATAGAACTACTTACTATGGTTGCAAGCTTAACAG
TTGCCGCAGTGCTTGGCGTAACCGAACAAACGGTGTTGTACCTTGGTGTTACATGGGCGCTCATTGCACTGATATTTATT
GATATTGACCACATGTTGCTGCCAGATCAAATCACTTTGCCACTGTTATGGCTAGGCCTTCTGGCTTCAATATTTGGCCT
GACCATAGAGCCTGCGCAAGCCATTATTGGTGCTGCACTGGGGTATTTAAGTTTTTGGTCGGTATATTGGTTGTTTAAAC
TCGCTACCGGCAAAGAAGGCATGGGTTATGGTGACTTTAAATTAATGGCAGTCTTTGGTGCCTTACTTGGCTGGCAAGCA
CTGCCGATGATTATTTTACTGTCGAGTTTAGTAGGCGCTGTTATTGGTATTACGCTCCTCAGCATTCAAGGTAAAGACAA
AGCCACGCCAATCCCTTTTGGCCCTTATATCGCTATTGCAGGTTGGGTTGCGATACTTTGGGGTACTGAAATATCAATCG
CTTATTACAGCTTGATTTTAGCCTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(23-136)

Type IV leader peptidase family (Peptidase_A24)

(151-257)


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

53.741

97.674

0.525
  pilD Acinetobacter nosocomialis M2

53.401

97.674

0.522
  pilD Vibrio campbellii strain DS40M4

49.495

98.671

0.488
  pilD Vibrio cholerae strain A1552

50.542

92.027

0.465
  pilD Neisseria gonorrhoeae MS11

47.148

87.375

0.412

Multiple sequence alignment