Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PSBA01_RS05765 Genome accession   NZ_CP060390
Coordinates   1351219..1352121 (+) Length   300 a.a.
NCBI ID   WP_093069694.1    Uniprot ID   -
Organism   Psychrobacter sp. KCTC 72983     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1346219..1357121
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSBA01_RS05750 tpiA 1346292..1347104 (-) 813 WP_093069701.1 triose-phosphate isomerase -
  PSBA01_RS05755 pilB 1347772..1349487 (+) 1716 WP_093069698.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSBA01_RS05760 pilC 1349988..1351211 (+) 1224 WP_093069696.1 type II secretion system F family protein Machinery gene
  PSBA01_RS05765 pilD 1351219..1352121 (+) 903 WP_093069694.1 prepilin peptidase Machinery gene
  PSBA01_RS05770 coaE 1352225..1352911 (+) 687 WP_093069692.1 dephospho-CoA kinase -
  PSBA01_RS05775 rlmB 1352874..1353644 (-) 771 WP_093069689.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  PSBA01_RS05780 - 1353891..1354226 (-) 336 WP_058023616.1 pyrimidine/purine nucleoside phosphorylase -
  PSBA01_RS05785 recN 1354946..1356625 (+) 1680 WP_093069687.1 DNA repair protein RecN -

Sequence

Protein


Download         Length: 300 a.a.        Molecular weight: 33127.72 Da        Isoelectric Point: 8.9103

>NTDB_id=475616 PSBA01_RS05765 WP_093069694.1 1351219..1352121(+) (pilD) [Psychrobacter sp. KCTC 72983]
MQFIQLLQENIALALVVFGLLGLCVGSFLNVVIHRIPLMMIYGWRQECSQFMIEQADMPREHTLPIANVVATDQPITLSR
PASRCPHCAHKIRWYENIPLISWLALKGRCSNCKAAIGLRYPVVELVTALLSVLVIYKFGVNATGLSALVLVWTLVALTG
IDFDTQLLPDRLTFPLAGLGLAVNSQGWFVSPTQSIWGLLFGFLSLWIVVKVFYLITKKHGMGQGDFKLLAVLGAWLGPM
MLPLIILLSSLLGSIVGIILMKKQGESRPFAFGPYIAVAGIVALLYGSDIVSWYLGMYTY

Nucleotide


Download         Length: 903 bp        

>NTDB_id=475616 PSBA01_RS05765 WP_093069694.1 1351219..1352121(+) (pilD) [Psychrobacter sp. KCTC 72983]
ATGCAATTCATACAGTTACTACAAGAAAATATAGCTCTAGCCTTGGTCGTATTTGGTTTGTTAGGTCTTTGTGTTGGTAG
TTTTTTAAATGTTGTGATTCATCGTATCCCACTTATGATGATTTACGGTTGGCGACAAGAATGTAGCCAATTTATGATCG
AACAGGCAGATATGCCACGCGAGCATACGTTACCTATAGCGAATGTCGTGGCTACTGACCAACCCATTACTTTGAGTCGA
CCTGCCTCACGCTGCCCCCATTGCGCTCATAAGATCAGATGGTATGAAAACATACCCTTAATCAGCTGGCTGGCACTAAA
AGGGCGCTGCTCAAACTGCAAAGCTGCGATTGGTTTGCGGTATCCTGTAGTTGAGTTAGTAACCGCTTTACTATCGGTGC
TCGTGATCTACAAATTCGGTGTCAATGCAACTGGATTGTCAGCGCTCGTTTTAGTGTGGACACTAGTGGCTCTAACCGGT
ATTGATTTTGATACGCAGCTACTACCCGATCGCCTGACTTTTCCACTAGCAGGTCTAGGATTGGCCGTCAACTCACAAGG
CTGGTTTGTCTCACCAACGCAGTCGATATGGGGTTTACTCTTCGGATTTTTATCACTCTGGATCGTCGTTAAAGTATTCT
ACTTAATCACTAAGAAACATGGGATGGGACAAGGTGATTTTAAATTACTAGCAGTATTAGGTGCTTGGCTCGGGCCCATG
ATGTTGCCATTAATTATTTTATTATCATCCTTGCTTGGGTCGATCGTCGGAATAATCTTGATGAAAAAACAAGGTGAGAG
CAGGCCTTTTGCCTTTGGTCCTTACATTGCTGTCGCAGGCATTGTTGCTTTATTATACGGCTCAGATATCGTCAGCTGGT
ATCTTGGTATGTATACTTACTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(149-258)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-139)


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 nosocomialis M2

54.514

96

0.523
  pilD Acinetobacter baumannii D1279779

53.819

96

0.517
  pilD Vibrio cholerae strain A1552

48.387

93

0.45
  pilD Vibrio campbellii strain DS40M4

47.038

95.667

0.45
  pilD Neisseria gonorrhoeae MS11

41.786

93.333

0.39