Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SFRI_RS19435 Genome accession   NC_008345
Coordinates   4507106..4508032 (+) Length   308 a.a.
NCBI ID   WP_011639199.1    Uniprot ID   -
Organism   Shewanella frigidimarina NCIMB 400     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4502106..4513032
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SFRI_RS21815 (Sfri_3782) pilE 4503482..4503910 (+) 429 WP_049763611.1 pilin Machinery gene
  SFRI_RS19425 (Sfri_3783) pilB 4504003..4505709 (+) 1707 WP_011639197.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SFRI_RS19430 (Sfri_3784) pilC 4505817..4507076 (+) 1260 WP_011639198.1 type II secretion system F family protein Machinery gene
  SFRI_RS19435 (Sfri_3785) pilD 4507106..4508032 (+) 927 WP_011639199.1 A24 family peptidase Machinery gene
  SFRI_RS19440 (Sfri_3786) coaE 4508029..4508658 (+) 630 WP_011639200.1 dephospho-CoA kinase -
  SFRI_RS19445 (Sfri_3787) zapD 4508651..4509385 (+) 735 WP_011639201.1 cell division protein ZapD -
  SFRI_RS19450 (Sfri_3788) yacG 4509428..4509640 (+) 213 WP_041413247.1 DNA gyrase inhibitor YacG -
  SFRI_RS19455 (Sfri_3789) mutT 4509664..4510059 (+) 396 WP_011639203.1 8-oxo-dGTP diphosphatase MutT -
  SFRI_RS21395 (Sfri_3790) - 4510374..4510973 (-) 600 Protein_3776 transposase -

Sequence

Protein


Download         Length: 308 a.a.        Molecular weight: 34357.86 Da        Isoelectric Point: 7.6802

>NTDB_id=26352 SFRI_RS19435 WP_011639199.1 4507106..4508032(+) (pilD) [Shewanella frigidimarina NCIMB 400]
MTESISNFITTMTQYPWVFVAISFIFAATIGSFLNVVIHRLPVMMKREWQSECNFYLNEYHPDIVKQVGTERLQKAIDPF
PEKYNLVVPGSACPKCKANIKPWHNLPILGWLMLKGKCADCKTGISSRYPIIELLTGVLIAALAWHFGPTWQFVYASILT
FVLVALTGIDLDEMLLPDQLTLPILWLGLIINLKGIYTSPEDAIIGAAAGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAV
FGAWLGWQMLPLIILLSSLVGAVVGITMIMAKQLNKGNPIPFGPYIAAAGWIALVWGHDILNWYLSTL

Nucleotide


Download         Length: 927 bp        

>NTDB_id=26352 SFRI_RS19435 WP_011639199.1 4507106..4508032(+) (pilD) [Shewanella frigidimarina NCIMB 400]
ATGACTGAATCTATCTCAAACTTTATTACAACAATGACTCAATACCCTTGGGTCTTTGTTGCGATTAGCTTTATTTTTGC
GGCCACCATTGGCAGCTTTCTCAACGTCGTGATCCACCGTTTACCGGTGATGATGAAACGTGAATGGCAAAGCGAATGTA
ACTTTTATCTCAATGAATATCATCCTGACATTGTAAAACAAGTAGGCACTGAGCGTTTACAGAAAGCCATCGATCCCTTT
CCTGAAAAATACAATCTAGTAGTACCAGGTTCCGCCTGCCCTAAATGCAAGGCCAATATAAAGCCTTGGCATAATCTGCC
AATATTAGGTTGGCTGATGCTTAAGGGTAAATGTGCCGATTGCAAAACCGGTATTTCAAGCCGCTATCCCATTATTGAAC
TCTTAACCGGCGTATTAATTGCCGCATTAGCATGGCATTTTGGCCCAACATGGCAATTTGTTTATGCCAGCATTCTAACG
TTTGTGTTAGTGGCGTTAACTGGCATCGATTTAGATGAAATGCTATTACCGGACCAACTCACGTTACCAATTCTTTGGTT
AGGATTAATCATTAACCTTAAAGGTATTTATACCAGCCCTGAAGACGCGATTATCGGCGCAGCTGCAGGGTATTTAAGTT
TGTGGTCGGTATTCTGGTTATTTAAATTAGTCACTGGCAAAGAAGGCATGGGCTACGGTGACTTTAAACTATTAGCCGTT
TTTGGTGCCTGGTTAGGCTGGCAAATGTTACCACTAATTATTCTATTATCTTCACTGGTAGGCGCGGTAGTGGGCATTAC
CATGATTATGGCTAAACAGCTCAACAAAGGTAACCCTATCCCCTTTGGTCCTTATATTGCTGCAGCAGGCTGGATAGCGT
TAGTATGGGGACATGACATTCTCAATTGGTATCTTAGTACGTTATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(158-266)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-147)


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

51.864

95.779

0.497
  pilD Acinetobacter nosocomialis M2

49.18

99.026

0.487
  pilD Acinetobacter baumannii D1279779

48.852

99.026

0.484
  pilD Vibrio cholerae strain A1552

50.169

95.779

0.481
  pilD Neisseria gonorrhoeae MS11

44.828

94.156

0.422

Multiple sequence alignment