Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JFT56_RS17475 Genome accession   NZ_CP066369
Coordinates   4024319..4025260 (+) Length   313 a.a.
NCBI ID   WP_198781257.1    Uniprot ID   -
Organism   Shewanella putrefaciens strain CGMCC-1.6515     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4019319..4030260
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JFT56_RS17460 - 4020328..4020774 (+) 447 WP_198781254.1 pilin -
  JFT56_RS17465 pilB 4020867..4022576 (+) 1710 WP_198781255.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JFT56_RS17470 pilC 4022762..4024027 (+) 1266 WP_198781256.1 type II secretion system F family protein Machinery gene
  JFT56_RS17475 pilD 4024319..4025260 (+) 942 WP_198781257.1 prepilin peptidase Machinery gene
  JFT56_RS17480 coaE 4025542..4026159 (+) 618 WP_198781258.1 dephospho-CoA kinase -
  JFT56_RS17485 zapD 4026152..4026886 (+) 735 WP_198781259.1 cell division protein ZapD -
  JFT56_RS17490 yacG 4026966..4027175 (+) 210 WP_198781260.1 DNA gyrase inhibitor YacG -
  JFT56_RS17495 mutT 4027215..4027628 (+) 414 WP_198781261.1 8-oxo-dGTP diphosphatase MutT -
  JFT56_RS17500 - 4027879..4028415 (+) 537 WP_198781262.1 thioredoxin family protein -
  JFT56_RS17505 - 4028787..4029707 (-) 921 WP_198781263.1 exopolyphosphatase -

Sequence

Protein


Download         Length: 313 a.a.        Molecular weight: 34857.27 Da        Isoelectric Point: 7.1239

>NTDB_id=519494 JFT56_RS17475 WP_198781257.1 4024319..4025260(+) (pilD) [Shewanella putrefaciens strain CGMCC-1.6515]
MTEFITLLGQSFGHSFDQSPWLFVTLSFVFAATIGSFLNVVIHRFPVMMKREWQQECNQYLQEYHADIVTQIGIEKLNKP
IDNYPEKYNLVVPGSACPKCKTAIKPWHNLPVLGWLMLKGKCAACHAPISSRYPIVELITGLLVATLAWHFGPSWQFVCA
SILTFVLIALTGVDLDEMLLPDQLTLPLLWLGLLLNLNHTFVSPTDAIIGAVAGYLSLWSIFWLFKLLTGKEGMGYGDFK
LLAVFGAWLGWQLLPLVILLSSLVGAVVGLTMIVTKRNQLGNPIPFGPYIAAAGWIAVIWGHPIVDWYLSTLN

Nucleotide


Download         Length: 942 bp        

>NTDB_id=519494 JFT56_RS17475 WP_198781257.1 4024319..4025260(+) (pilD) [Shewanella putrefaciens strain CGMCC-1.6515]
ATGACTGAATTTATCACTTTATTAGGCCAATCTTTTGGCCACTCTTTTGACCAGAGCCCTTGGCTTTTCGTAACCTTAAG
CTTTGTTTTTGCGGCGACTATTGGCAGCTTTTTAAATGTCGTTATTCATCGATTCCCTGTGATGATGAAGCGCGAATGGC
AGCAGGAATGTAATCAATATTTACAGGAATACCATGCCGATATAGTTACACAAATCGGTATCGAAAAGCTCAACAAACCC
ATAGATAACTACCCCGAAAAATATAACCTCGTTGTGCCAGGTTCTGCCTGTCCTAAGTGCAAAACCGCGATAAAACCTTG
GCATAATCTACCCGTATTAGGTTGGTTAATGCTTAAGGGCAAATGCGCCGCTTGCCACGCTCCTATTTCAAGCCGTTACC
CTATTGTTGAATTAATCACGGGCCTTTTGGTGGCGACCTTGGCCTGGCATTTTGGCCCGAGTTGGCAATTTGTCTGCGCC
AGCATCTTAACTTTTGTGCTTATCGCACTTACGGGTGTCGATTTGGATGAAATGTTGCTGCCCGATCAATTAACCCTGCC
TTTACTCTGGCTGGGATTGCTGCTCAATTTAAACCACACCTTCGTCAGCCCAACCGATGCGATTATCGGCGCTGTAGCGG
GCTATTTAAGTTTATGGTCCATTTTCTGGCTGTTTAAGTTACTCACAGGCAAGGAAGGCATGGGTTATGGGGACTTTAAA
CTGCTGGCGGTATTTGGCGCATGGCTCGGCTGGCAGCTGCTCCCCCTTGTTATCCTGCTCTCATCCTTAGTTGGTGCCGT
TGTGGGCCTCACTATGATTGTCACTAAACGCAATCAACTGGGTAACCCCATTCCCTTTGGCCCCTACATCGCCGCCGCTG
GTTGGATAGCGGTAATATGGGGACACCCCATAGTGGATTGGTATTTAAGTACGCTGAACTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(29-151)

Type IV leader peptidase family (Peptidase_A24)

(162-270)


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

51.678

95.208

0.492
  pilD Vibrio cholerae strain A1552

52.041

93.93

0.489
  pilD Acinetobacter baumannii D1279779

46.875

92.013

0.431
  pilD Acinetobacter nosocomialis M2

46.875

92.013

0.431
  pilD Neisseria gonorrhoeae MS11

45.704

92.971

0.425