Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JQC75_RS01775 Genome accession   NZ_CP069213
Coordinates   379020..379934 (-) Length   304 a.a.
NCBI ID   WP_203325800.1    Uniprot ID   -
Organism   Shewanella litorisediminis strain SMK1-12     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 374020..384934
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JQC75_RS01755 (JQC75_01755) mutT 376961..377356 (-) 396 WP_203325796.1 8-oxo-dGTP diphosphatase MutT -
  JQC75_RS01760 (JQC75_01760) yacG 377398..377613 (-) 216 WP_203325797.1 DNA gyrase inhibitor YacG -
  JQC75_RS01765 (JQC75_01765) zapD 377676..378410 (-) 735 WP_203325798.1 cell division protein ZapD -
  JQC75_RS01770 (JQC75_01770) coaE 378403..379020 (-) 618 WP_203325799.1 dephospho-CoA kinase -
  JQC75_RS01775 (JQC75_01775) pilD 379020..379934 (-) 915 WP_203325800.1 prepilin peptidase Machinery gene
  JQC75_RS01780 (JQC75_01780) pilC 379981..381240 (-) 1260 WP_203325801.1 type II secretion system F family protein Machinery gene
  JQC75_RS01785 (JQC75_01785) pilB 381399..383105 (-) 1707 WP_203325802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JQC75_RS01790 (JQC75_01790) - 383157..383633 (-) 477 WP_203325803.1 pilin -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 34119.42 Da        Isoelectric Point: 6.6271

>NTDB_id=532907 JQC75_RS01775 WP_203325800.1 379020..379934(-) (pilD) [Shewanella litorisediminis strain SMK1-12]
MTEFISLMSQYPWLFILLAFLFAATIGSFLNVVIHRLPVMIKREWQQECNAYLEEYQPELFKKIGKTNLEKPIDSYPERY
NLIFPGSSCPKCGTHIKPWHNLPVMGWLILGGKCAACKAPISSRYPIVEAFTGLTVATLAWHFGPTWQFVATALLTFGLI
AMSGIDLDEMLLPDSLTLPLLWLGLLLNYQGLFTNLEDALIGAAAGYLSLWSVYWLFKLTTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGAIVGILMMVWKNHNRENPIPFGPYIAAAGWIALIWGQDIVSWYLGSL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=532907 JQC75_RS01775 WP_203325800.1 379020..379934(-) (pilD) [Shewanella litorisediminis strain SMK1-12]
ATGACTGAATTTATCTCCCTGATGAGCCAGTACCCCTGGCTCTTTATTTTGCTCGCGTTCCTCTTCGCCGCCACCATTGG
CAGTTTCTTAAACGTGGTAATTCATCGTTTACCCGTAATGATAAAAAGAGAGTGGCAGCAGGAATGTAATGCTTATCTCG
AAGAGTACCAACCTGAACTTTTCAAAAAGATTGGTAAAACAAATTTGGAAAAACCCATTGATAGTTATCCGGAGCGTTAC
AACCTGATTTTTCCAGGTTCATCCTGCCCTAAATGTGGTACTCATATTAAACCCTGGCACAATCTGCCGGTAATGGGTTG
GCTAATCCTTGGCGGTAAATGTGCCGCCTGCAAAGCCCCTATCTCAAGCCGCTACCCCATAGTTGAAGCCTTTACCGGCC
TGACCGTTGCAACGCTGGCGTGGCACTTCGGCCCGACTTGGCAATTTGTGGCAACTGCATTACTGACCTTCGGCTTAATT
GCCATGTCGGGTATTGACCTCGATGAAATGTTGCTGCCAGACAGCCTCACGCTTCCACTGCTGTGGCTTGGATTGCTGCT
TAACTATCAGGGGTTATTTACTAACCTGGAAGATGCGTTGATAGGTGCTGCTGCCGGTTATCTGTCGCTTTGGTCTGTCT
ATTGGCTGTTTAAGCTCACCACCGGCAAAGAAGGCATGGGTTACGGTGACTTTAAACTGATGGCGCTCTTTGGCGCTTGG
CTCGGCTGGCAGATGCTGCCGCTTATCATCCTGCTATCAAGCTTGGTAGGTGCCATCGTTGGCATCCTGATGATGGTCTG
GAAAAACCATAATCGTGAAAATCCCATCCCATTTGGCCCTTATATCGCAGCCGCCGGCTGGATAGCGCTTATTTGGGGAC
AAGATATAGTCAGCTGGTATCTGGGTTCTCTTTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)


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 campbellii strain DS40M4

50.831

99.013

0.503
  pilD Vibrio cholerae strain A1552

51.02

96.711

0.493
  pilD Acinetobacter baumannii D1279779

49.827

95.066

0.474
  pilD Acinetobacter nosocomialis M2

49.135

95.066

0.467
  pilD Neisseria gonorrhoeae MS11

42.361

94.737

0.401