Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PMI20_RS28915 Genome accession   NZ_CP124732
Coordinates   6449885..6450757 (+) Length   290 a.a.
NCBI ID   WP_007924675.1    Uniprot ID   -
Organism   Pseudomonas sp. GM17     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 6444885..6455757
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PMI20_RS28900 (PMI20_028900) - 6447242..6447598 (-) 357 WP_007924672.1 BON domain-containing protein -
  PMI20_RS28905 (PMI20_028905) - 6447885..6448301 (-) 417 WP_007924673.1 pilin -
  PMI20_RS28910 (PMI20_028910) pilC 6448665..6449882 (+) 1218 WP_007924674.1 type II secretion system F family protein Machinery gene
  PMI20_RS28915 (PMI20_028915) pilD 6449885..6450757 (+) 873 WP_007924675.1 A24 family peptidase Machinery gene
  PMI20_RS28920 (PMI20_028920) coaE 6450754..6451377 (+) 624 WP_007924677.1 dephospho-CoA kinase -
  PMI20_RS28925 (PMI20_028925) yacG 6451374..6451577 (+) 204 WP_007924679.1 DNA gyrase inhibitor YacG -
  PMI20_RS28930 (PMI20_028930) - 6451582..6451797 (-) 216 WP_007924682.1 hypothetical protein -
  PMI20_RS28935 (PMI20_028935) - 6451863..6452552 (-) 690 WP_007924684.1 energy-coupling factor ABC transporter permease -
  PMI20_RS28940 (PMI20_028940) - 6452549..6453016 (-) 468 WP_007924686.1 hypothetical protein -
  PMI20_RS28945 (PMI20_028945) - 6453471..6454907 (+) 1437 WP_037034433.1 undecaprenyl-phosphate glucose phosphotransferase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32142.23 Da        Isoelectric Point: 7.7036

>NTDB_id=827794 PMI20_RS28915 WP_007924675.1 6449885..6450757(+) (pilD) [Pseudomonas sp. GM17]
MSLTEVLASYPLVFVASVLILGLIVGSFLNVLIWRLPKMLERDWHAQARDILGLPDEPAGPTYNLLLPHSQCPHCAHPIR
PWENIPLFSYLLLRGRCSACKAPIGRRYPLVELTCGLASAFVAWHFGFGWQSGLMLFLSWGLLAMSLIDADHQLLPDVLV
LPLLWLGLIVNGFDLFVSLHDALWGAVAGYLCLWSVYWLFKLLTGKEGMGHGDFKLLAMFGAWGGWQILPMTLLLASLTG
ALAGIAMLRRNRAQMSTPIPFGPFLAIAGWIALLWGGQITDSYLQFVGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=827794 PMI20_RS28915 WP_007924675.1 6449885..6450757(+) (pilD) [Pseudomonas sp. GM17]
ATGTCATTGACTGAGGTCCTGGCCAGCTACCCGCTGGTCTTCGTAGCATCGGTGCTGATCCTGGGCCTGATTGTCGGCAG
CTTTCTCAATGTGCTGATCTGGCGTCTGCCAAAGATGCTCGAACGCGACTGGCACGCCCAGGCCCGTGACATCCTCGGGC
TGCCCGACGAGCCTGCCGGGCCGACCTACAACCTGTTGCTCCCGCACTCCCAGTGCCCGCACTGCGCGCACCCGATCCGC
CCCTGGGAAAACATCCCTCTGTTCAGCTACCTGCTGCTGCGCGGACGCTGCTCCGCGTGCAAGGCCCCGATCGGCCGGCG
CTACCCGCTGGTGGAGCTGACCTGCGGCCTGGCCTCGGCGTTCGTGGCCTGGCATTTCGGCTTTGGCTGGCAGTCCGGCT
TGATGCTGTTCCTGAGCTGGGGCCTGTTGGCGATGAGCCTGATCGATGCCGATCATCAACTGTTGCCCGACGTGCTGGTG
CTGCCCCTGTTGTGGCTGGGCCTGATCGTCAATGGCTTCGACCTGTTCGTCAGCCTCCACGATGCGCTGTGGGGCGCCGT
GGCCGGCTACCTGTGCCTGTGGTCGGTGTACTGGTTGTTCAAGCTGCTGACCGGCAAGGAAGGCATGGGGCACGGCGATT
TCAAGCTGTTGGCCATGTTCGGCGCCTGGGGCGGCTGGCAGATTCTGCCGATGACCCTGCTGCTGGCCTCACTGACCGGA
GCCCTGGCCGGGATCGCCATGCTGCGCCGCAACCGCGCGCAAATGTCCACGCCTATCCCTTTCGGTCCCTTTCTGGCCAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTCCTATTTGCAGTTTGTCGGTTTCAGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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

53.497

98.621

0.528
  pilD Vibrio campbellii strain DS40M4

51.408

97.931

0.503
  pilD Acinetobacter baumannii D1279779

50.185

93.448

0.469
  pilD Acinetobacter nosocomialis M2

50.185

93.448

0.469
  pilD Neisseria gonorrhoeae MS11

47.794

93.793

0.448