Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   J9253_RS19125 Genome accession   NZ_CP072801
Coordinates   3951655..3952527 (-) Length   290 a.a.
NCBI ID   WP_210222435.1    Uniprot ID   -
Organism   Thiothrix litoralis strain AS     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3946655..3957527
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J9253_RS19100 (J9253_19100) - 3947032..3947475 (-) 444 WP_210222430.1 hypothetical protein -
  J9253_RS19105 (J9253_19105) - 3947546..3949072 (-) 1527 WP_210222431.1 glucan biosynthesis protein -
  J9253_RS19110 (J9253_19110) opgC 3949260..3950447 (+) 1188 WP_210222432.1 OpgC domain-containing protein -
  J9253_RS19115 (J9253_19115) ubiE 3950393..3951145 (-) 753 WP_210222433.1 bifunctional demethylmenaquinone methyltransferase/2-methoxy-6-polyprenyl-1,4-benzoquinol methylase UbiE -
  J9253_RS19120 (J9253_19120) - 3951220..3951642 (+) 423 WP_210222434.1 hypothetical protein -
  J9253_RS19125 (J9253_19125) pilD 3951655..3952527 (-) 873 WP_210222435.1 A24 family peptidase Machinery gene
  J9253_RS19130 (J9253_19130) pilC 3952536..3953768 (-) 1233 WP_228291435.1 type II secretion system F family protein Machinery gene
  J9253_RS19135 (J9253_19135) pilB 3953903..3955624 (-) 1722 WP_210222437.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J9253_RS19140 (J9253_19140) - 3955716..3957257 (-) 1542 WP_210222438.1 ATP-binding protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32350.62 Da        Isoelectric Point: 6.4496

>NTDB_id=555935 J9253_RS19125 WP_210222435.1 3951655..3952527(-) (pilD) [Thiothrix litoralis strain AS]
MELIYLLNTSQVWLVSVVGLFSLLVGSFLNVVIYRLPIILERQWKSDCNEWLEKQAGEDTGDFNLVVPRSQCPTCGHKIT
ALENIPVLSYLFLRGKCRGCKTPISIQYPLVEMATAVLSMLVAWRVGYSFELLALLGFTWVLVALFMIDAQTMLLPDSLT
YPLLWAGLLLNLNGMIVPLPDAVLGAAFGYLALWSVFHLFRLITGKEGMGYGDFKLLAALGAWGGWQILPFVIFASSAFG
AVFGILWMLVKRNSESLPMPFGPWLAMAGFVAIVWRTEILAWMTPIFMPN

Nucleotide


Download         Length: 873 bp        

>NTDB_id=555935 J9253_RS19125 WP_210222435.1 3951655..3952527(-) (pilD) [Thiothrix litoralis strain AS]
ATGGAACTCATTTATTTACTCAACACCAGCCAGGTCTGGCTGGTCAGCGTGGTTGGGCTGTTTTCACTGCTGGTGGGCAG
TTTCCTGAATGTGGTGATTTACCGCCTGCCGATTATTCTGGAACGCCAATGGAAAAGTGACTGCAACGAATGGTTGGAAA
AACAAGCAGGTGAGGATACCGGGGATTTCAACCTAGTCGTGCCACGTTCACAATGCCCTACTTGCGGTCACAAGATTACT
GCACTGGAAAATATCCCGGTACTGAGCTACCTGTTCCTGCGGGGCAAATGTCGCGGTTGTAAAACCCCAATCTCCATCCA
GTACCCGCTGGTGGAAATGGCGACTGCGGTACTCTCCATGTTGGTGGCATGGCGGGTAGGCTACAGTTTTGAACTGCTGG
CCTTATTGGGTTTCACTTGGGTATTGGTGGCATTGTTCATGATCGACGCCCAAACCATGCTGTTACCCGACAGCCTGACC
TACCCGCTGTTATGGGCAGGGTTGCTGCTCAATCTGAATGGCATGATTGTGCCGCTGCCTGATGCGGTATTGGGTGCTGC
CTTCGGTTATCTGGCGTTGTGGTCAGTGTTTCACCTGTTCCGTCTGATTACCGGCAAGGAAGGCATGGGTTACGGTGACT
TCAAATTGCTGGCGGCACTCGGTGCATGGGGGGGCTGGCAAATATTGCCTTTCGTCATTTTCGCCTCATCCGCGTTTGGC
GCAGTGTTTGGCATTTTGTGGATGCTGGTTAAACGCAACAGCGAAAGCCTGCCGATGCCGTTTGGTCCATGGCTGGCAAT
GGCAGGCTTCGTGGCAATCGTTTGGCGCACGGAAATATTGGCGTGGATGACGCCTATCTTCATGCCCAACTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

49.825

98.276

0.49
  pilD Vibrio campbellii strain DS40M4

51.282

94.138

0.483
  pilD Neisseria gonorrhoeae MS11

49.254

92.414

0.455
  pilD Acinetobacter baumannii D1279779

46.97

91.034

0.428
  pilD Acinetobacter nosocomialis M2

46.591

91.034

0.424