Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   E5677_RS13080 Genome accession   NZ_CP039251
Coordinates   3152955..3153854 (+) Length   299 a.a.
NCBI ID   WP_062843517.1    Uniprot ID   -
Organism   Psychrobacter sp. PAMC27889     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3147955..3158854
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E5677_RS13060 (E5677_13060) secG 3148011..3148319 (-) 309 WP_025652589.1 preprotein translocase subunit SecG -
  E5677_RS13065 (E5677_13065) tpiA 3148535..3149341 (-) 807 WP_062843520.1 triose-phosphate isomerase -
  E5677_RS13070 (E5677_13070) pilB 3149799..3151505 (+) 1707 WP_062843519.1 type IV-A pilus assembly ATPase PilB Machinery gene
  E5677_RS13075 (E5677_13075) pilC 3151724..3152947 (+) 1224 WP_062843518.1 type II secretion system F family protein Machinery gene
  E5677_RS13080 (E5677_13080) pilD 3152955..3153854 (+) 900 WP_062843517.1 prepilin peptidase Machinery gene
  E5677_RS13085 (E5677_13085) coaE 3153985..3154668 (+) 684 WP_062843516.1 dephospho-CoA kinase -
  E5677_RS13090 (E5677_13090) rlmB 3154631..3155401 (-) 771 WP_062843515.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  E5677_RS13095 (E5677_13095) - 3155614..3155949 (-) 336 WP_062843514.1 pyrimidine/purine nucleoside phosphorylase -
  E5677_RS13100 (E5677_13100) recN 3156668..3158347 (+) 1680 WP_062843513.1 DNA repair protein RecN -

Sequence

Protein


Download         Length: 299 a.a.        Molecular weight: 33200.69 Da        Isoelectric Point: 8.4700

>NTDB_id=357624 E5677_RS13080 WP_062843517.1 3152955..3153854(+) (pilD) [Psychrobacter sp. PAMC27889]
MQFIQLLQDNMTLALLVFGLLGLCVGSFLNVVIHRIPLIMIYDWRQECSQFISDQVDMPREHTQPLTNIVANDQPITLSR
PASRCPHCAHKIKWYENIPLISWLVLRGRCSDCKASINLRYPLVELVTALLSVLVIYKFGVNATGLSALILVWTLVALTG
IDFDTQLLPDRLTFPLAGLGLAVNSQGWFVSPTQSIWGLLLGFLSLWIVVKIFYLITKKHGMGQGDFKLLAVLGAWLGPL
MLPLIILLSSLLGSIVGLILMKKQGESRPFAFGPYIAIAGIVALLYGSDIVSWYLGMYT

Nucleotide


Download         Length: 900 bp        

>NTDB_id=357624 E5677_RS13080 WP_062843517.1 3152955..3153854(+) (pilD) [Psychrobacter sp. PAMC27889]
ATGCAATTTATACAGTTACTACAAGACAATATGACCCTAGCTTTACTCGTATTTGGTTTATTGGGTCTTTGTGTTGGCAG
TTTTTTGAATGTGGTTATTCACCGTATTCCACTAATAATGATCTATGACTGGCGACAAGAATGTAGTCAGTTCATCTCTG
ATCAGGTCGATATGCCACGTGAACATACGCAACCTTTGACAAATATTGTCGCAAATGACCAACCCATTACCTTGAGTCGA
CCAGCCTCACGCTGCCCTCATTGTGCTCATAAAATTAAATGGTATGAAAACATCCCTTTAATCAGTTGGTTGGTGTTGCG
CGGTCGTTGTTCAGACTGCAAAGCTTCGATTAATCTGCGCTATCCTTTGGTTGAGTTGGTTACTGCCCTACTATCGGTAT
TAGTAATTTACAAATTTGGGGTCAATGCTACTGGGTTGTCCGCATTAATCTTGGTATGGACGCTCGTCGCTTTAACAGGC
ATTGATTTTGATACCCAGCTATTGCCCGACCGTCTAACCTTTCCATTGGCAGGTTTGGGATTGGCCGTCAACTCACAAGG
TTGGTTTGTCTCCCCTACTCAGTCCATCTGGGGCTTATTGCTTGGATTTTTGTCATTGTGGATAGTGGTTAAGATTTTTT
ATCTTATTACCAAAAAGCACGGCATGGGCCAAGGAGACTTTAAATTACTGGCCGTACTGGGTGCTTGGCTTGGGCCACTA
ATGTTACCGCTCATTATATTGTTGTCTTCCTTATTGGGATCTATCGTTGGATTGATCTTGATGAAAAAACAGGGTGAGAG
CCGGCCGTTCGCTTTTGGGCCTTATATCGCTATTGCGGGAATCGTTGCGTTATTATATGGTTCAGATATCGTCAGCTGGT
ATCTTGGCATGTATACTTAA

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

55.208

96.321

0.532
  pilD Acinetobacter baumannii D1279779

54.514

96.321

0.525
  pilD Vibrio cholerae strain A1552

48.746

93.311

0.455
  pilD Vibrio campbellii strain DS40M4

47.872

94.314

0.452
  pilD Neisseria gonorrhoeae MS11

40.714

93.645

0.381

Multiple sequence alignment