Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PSYC_RS00320 Genome accession   NC_007204
Coordinates   68477..69376 (-) Length   299 a.a.
NCBI ID   WP_011279375.1    Uniprot ID   -
Organism   Psychrobacter arcticus 273-4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 63477..74376
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYC_RS00300 (Psyc_0058) recN 64062..65741 (-) 1680 WP_011279371.1 DNA repair protein RecN -
  PSYC_RS00305 (Psyc_0059) - 66427..66762 (+) 336 WP_011279372.1 pyrimidine/purine nucleoside phosphorylase -
  PSYC_RS00310 (Psyc_0060) rlmB 66968..67738 (+) 771 WP_011279373.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  PSYC_RS00315 (Psyc_0061) coaE 67701..68393 (-) 693 WP_011279374.1 dephospho-CoA kinase -
  PSYC_RS00320 (Psyc_0062) pilD 68477..69376 (-) 900 WP_011279375.1 prepilin peptidase Machinery gene
  PSYC_RS00325 (Psyc_0063) pilC 69402..70625 (-) 1224 WP_011279376.1 type II secretion system F family protein Machinery gene
  PSYC_RS00330 (Psyc_0064) pilB 70862..72571 (-) 1710 WP_041757403.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSYC_RS00335 (Psyc_0065) tpiA 73127..73936 (+) 810 WP_011279378.1 triose-phosphate isomerase -

Sequence

Protein


Download         Length: 299 a.a.        Molecular weight: 33071.65 Da        Isoelectric Point: 8.4700

>NTDB_id=24425 PSYC_RS00320 WP_011279375.1 68477..69376(-) (pilD) [Psychrobacter arcticus 273-4]
MQFIQLLQENMSIALVVFGLLGLCVGSFLNVVIHRIPLMMVSVWRQECSQFMYEQADIPREHTTPLVNIIATDIPITLSR
PASRCPHCAHKIKWYENIPLISWIVLRGRCSECKTTIGLRYPVVELVTALLSVLVIYQFGVSTAGLSALILVWTLVVLTG
IDFDTQLLPDRLTFPLAGLGLAVNSQGWFVSPTQSIWGLLLGFLSLWIVVKIFYLITKKHGMGQGDFKLLAVLGAWLGPV
MLPLVILLSSLLGSIVGLILIKKQGESKPFAFGPYIAIAGIVALLYGSDIVNWYLGMYN

Nucleotide


Download         Length: 900 bp        

>NTDB_id=24425 PSYC_RS00320 WP_011279375.1 68477..69376(-) (pilD) [Psychrobacter arcticus 273-4]
ATGCAATTTATACAGTTATTACAAGAAAATATGAGTATCGCTTTGGTCGTATTTGGTCTACTAGGACTTTGTGTAGGTAG
CTTTTTAAATGTGGTGATTCATCGTATACCACTGATGATGGTATCGGTTTGGCGACAAGAATGTAGCCAGTTTATGTATG
AGCAAGCAGACATACCACGTGAGCATACGACGCCACTGGTCAATATTATTGCCACCGATATACCTATTACCTTAAGCCGC
CCTGCTTCACGCTGCCCGCATTGTGCCCATAAAATCAAATGGTATGAAAACATCCCTTTAATCAGCTGGATAGTACTACG
TGGTCGTTGCTCAGAATGTAAAACGACTATTGGACTGCGTTATCCTGTCGTTGAGCTGGTCACTGCGCTGCTATCTGTAT
TGGTCATTTATCAGTTTGGTGTCAGTACGGCTGGGCTATCAGCATTGATTTTGGTATGGACACTAGTCGTTTTAACCGGT
ATCGATTTTGATACGCAGCTATTACCTGACCGCTTAACTTTTCCATTGGCAGGGTTGGGACTGGCGGTAAACTCACAAGG
CTGGTTTGTCTCCCCTACTCAGTCGATATGGGGCTTACTGTTGGGGTTTTTATCTCTATGGATAGTGGTCAAGATATTTT
ATTTGATCACCAAAAAACATGGCATGGGACAAGGTGACTTTAAATTATTGGCAGTACTGGGCGCGTGGCTTGGTCCTGTG
ATGTTGCCATTGGTTATTCTATTGTCATCTTTACTTGGCTCCATCGTTGGTCTTATCCTTATAAAAAAACAAGGCGAGAG
CAAGCCCTTTGCTTTTGGTCCTTATATTGCCATTGCGGGTATCGTGGCGTTGTTATATGGTTCAGATATCGTTAATTGGT
ATTTAGGCATGTATAATTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-139)

Type IV leader peptidase family (Peptidase_A24)

(149-258)


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

53.979

96.656

0.522
  pilD Acinetobacter baumannii D1279779

53.287

96.656

0.515
  pilD Vibrio campbellii strain DS40M4

46.69

95.987

0.448
  pilD Vibrio cholerae strain A1552

47.312

93.311

0.441
  pilD Neisseria gonorrhoeae MS11

41.071

93.645

0.385

Multiple sequence alignment