Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EK374_RS17900 Genome accession   NZ_CP034683
Coordinates   3961891..3962772 (+) Length   293 a.a.
NCBI ID   WP_127025896.1    Uniprot ID   -
Organism   Rheinheimera mangrovi strain LHK132     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3956891..3967772
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EK374_RS17880 - 3957643..3958296 (+) 654 WP_127025892.1 DUF1294 domain-containing protein -
  EK374_RS17885 - 3958466..3958849 (+) 384 WP_127025893.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  EK374_RS17890 pilB 3958943..3960640 (+) 1698 WP_127025894.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EK374_RS17895 pilC 3960671..3961891 (+) 1221 WP_127025895.1 type II secretion system F family protein Machinery gene
  EK374_RS17900 pilD 3961891..3962772 (+) 882 WP_127025896.1 A24 family peptidase Machinery gene
  EK374_RS17905 coaE 3962794..3963417 (+) 624 WP_127025897.1 dephospho-CoA kinase -
  EK374_RS17910 zapD 3963456..3964202 (+) 747 WP_127025898.1 cell division protein ZapD -
  EK374_RS17915 yacG 3964320..3964550 (+) 231 WP_127025899.1 DNA gyrase inhibitor YacG -
  EK374_RS17920 mutT 3964618..3965022 (-) 405 WP_127025900.1 8-oxo-dGTP diphosphatase MutT -
  EK374_RS17925 secA 3965026..3967740 (-) 2715 WP_127025901.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 293 a.a.        Molecular weight: 32553.78 Da        Isoelectric Point: 7.6561

>NTDB_id=332465 EK374_RS17900 WP_127025896.1 3961891..3962772(+) (pilD) [Rheinheimera mangrovi strain LHK132]
MDFFSPLVQVFEQSLLTFYIIVTLFGLAVGSFLNVVIYRLPKMMELAWQQDYQQYFDQNAEQTKTRFNLALPHSHCPKCQ
HQLSALDNIPLLSWIVLKAKCRYCKAPISVRYPAIEAFTALLSLLVAMHFGVTEQSLIYLAVTWCLIALSFIDIDKMLLP
DQITQPLLWFALLLSVTGFTVSPTDSLIGAAAGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAIFGALLGWQLLPLIILLS
SVVGAVLGSLMLLVQGKGKATPIPFGPYIAAAGWIAILWGKDITAWYLGTMGL

Nucleotide


Download         Length: 882 bp        

>NTDB_id=332465 EK374_RS17900 WP_127025896.1 3961891..3962772(+) (pilD) [Rheinheimera mangrovi strain LHK132]
ATGGATTTTTTCTCTCCTCTGGTGCAAGTGTTCGAACAGTCTCTACTTACTTTTTACATCATAGTGACGCTTTTTGGTCT
GGCGGTTGGCAGTTTTCTCAATGTGGTGATCTACAGATTACCTAAAATGATGGAACTGGCTTGGCAACAGGACTACCAGC
AGTACTTTGATCAAAATGCTGAACAAACAAAAACCAGATTTAATCTGGCTTTGCCACACTCCCATTGCCCTAAGTGTCAG
CATCAGCTATCAGCTCTGGACAATATTCCGCTGTTAAGCTGGATAGTGCTGAAAGCCAAATGCCGCTACTGCAAAGCACC
TATCAGTGTACGTTATCCAGCCATAGAAGCTTTTACAGCTTTGTTGTCTTTGCTGGTGGCTATGCATTTTGGTGTAACAG
AACAGAGCCTGATTTATTTAGCTGTGACCTGGTGCCTGATTGCCTTGTCTTTTATCGACATAGACAAAATGCTGTTACCC
GATCAAATTACCCAGCCACTGCTTTGGTTTGCCTTATTGCTCAGCGTCACAGGCTTTACTGTGTCCCCGACCGATTCATT
GATAGGCGCTGCCGCAGGTTACTTAAGTTTATGGTCTGTGTTCTGGTTATTTAAACTGGTAACCGGCAAAGAAGGTATGG
GGTATGGTGATTTTAAACTGCTGGCTATTTTTGGTGCTCTGCTCGGCTGGCAATTATTACCGCTGATTATTTTATTATCC
TCCGTAGTTGGTGCTGTGTTGGGTTCACTGATGCTGCTGGTTCAGGGCAAAGGCAAAGCTACTCCTATTCCTTTTGGGCC
CTATATAGCTGCAGCAGGTTGGATTGCGATTTTATGGGGCAAGGATATTACTGCCTGGTATCTGGGCACTATGGGTCTTT
AG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(141-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(24-130)


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

55.636

93.857

0.522
  pilD Vibrio campbellii strain DS40M4

52.098

97.611

0.509
  pilD Acinetobacter baumannii D1279779

51.049

97.611

0.498
  pilD Acinetobacter nosocomialis M2

50.35

97.611

0.491
  pilD Neisseria gonorrhoeae MS11

43.75

87.372

0.382

Multiple sequence alignment