Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CFF01_RS16875 Genome accession   NZ_CP022272
Coordinates   3836292..3837203 (+) Length   303 a.a.
NCBI ID   WP_088905559.1    Uniprot ID   A0AAC9U4G6
Organism   Shewanella marisflavi strain EP1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3831292..3842203
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CFF01_RS19225 - 3832773..3832890 (+) 118 Protein_3247 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  CFF01_RS16865 (CFF01_16865) pilB 3833184..3834890 (+) 1707 WP_088905557.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CFF01_RS16870 (CFF01_16870) pilC 3834979..3836244 (+) 1266 WP_088905558.1 type II secretion system F family protein Machinery gene
  CFF01_RS16875 (CFF01_16875) pilD 3836292..3837203 (+) 912 WP_088905559.1 A24 family peptidase Machinery gene
  CFF01_RS16880 (CFF01_16880) coaE 3837228..3837833 (+) 606 WP_088905560.1 dephospho-CoA kinase -
  CFF01_RS16885 (CFF01_16885) zapD 3837842..3838576 (+) 735 WP_033540806.1 cell division protein ZapD -
  CFF01_RS16890 (CFF01_16890) yacG 3838625..3838837 (+) 213 WP_088905561.1 DNA gyrase inhibitor YacG -
  CFF01_RS16895 (CFF01_16895) mutT 3838838..3839227 (+) 390 WP_088905562.1 8-oxo-dGTP diphosphatase MutT -
  CFF01_RS16900 (CFF01_16900) - 3839653..3840827 (+) 1175 WP_088903906.1 IS3 family transposase -

Sequence

Protein


Download         Length: 303 a.a.        Molecular weight: 33738.05 Da        Isoelectric Point: 7.5785

>NTDB_id=237803 CFF01_RS16875 WP_088905559.1 3836292..3837203(+) (pilD) [Shewanella marisflavi strain EP1]
MTDFIQLMAQYPLLFAAISFVFAATIGSFLNVVIHRLPVMMKREWQQECNQYLDEYHKSTIKGIEKKLAQPIDDYPEKYN
LIVPGSACPKCKTNIKPWHNLPIFGWLMLGGKCANCKTNISARYPIIEAITGLAVAYLAYYFGPSWQFAFATILTFGLIA
LTGIDLDEMLLPDQITLPLLWLGLLINLDSTFVSLSDAVIGAAAGYMSLWCVFWGFKLLTGKEGMGYGDFKLLAVFGAWF
GWQLLPLIILLSSVVGALVGLLLIVNKKINSGNPIPFGPYIALAGWIAMIWGEKITNWYLSTL

Nucleotide


Download         Length: 912 bp        

>NTDB_id=237803 CFF01_RS16875 WP_088905559.1 3836292..3837203(+) (pilD) [Shewanella marisflavi strain EP1]
ATGACTGATTTTATCCAATTAATGGCTCAGTATCCTTTACTGTTTGCCGCCATTTCTTTTGTTTTCGCCGCAACGATTGG
CAGCTTTTTAAATGTTGTGATTCACCGCCTTCCGGTAATGATGAAAAGGGAATGGCAGCAAGAGTGCAATCAGTATCTCG
ATGAATACCATAAATCCACTATCAAGGGGATTGAAAAGAAGTTAGCTCAGCCAATTGATGATTACCCTGAAAAATATAAC
CTCATCGTCCCAGGCTCTGCTTGTCCTAAATGCAAAACCAATATTAAGCCTTGGCACAACTTGCCCATTTTTGGTTGGTT
AATGCTCGGCGGGAAATGTGCTAATTGTAAAACCAACATATCTGCCAGATACCCTATTATTGAAGCCATTACAGGGCTTG
CTGTTGCCTATCTCGCCTATTACTTTGGCCCTAGCTGGCAATTTGCCTTTGCGACCATACTCACATTTGGGCTGATAGCC
TTAACTGGCATAGATCTCGATGAGATGTTGCTACCCGATCAGATCACCCTGCCACTCTTATGGCTTGGCCTTCTCATTAA
CCTTGATAGCACCTTTGTCTCGCTAAGCGATGCAGTGATTGGTGCAGCGGCAGGTTACATGAGCCTCTGGTGCGTCTTCT
GGGGCTTCAAGCTGCTGACAGGTAAAGAAGGTATGGGCTATGGCGACTTTAAACTACTGGCCGTGTTTGGCGCTTGGTTT
GGCTGGCAGTTACTTCCCCTGATCATCCTACTCTCGTCTGTTGTCGGCGCCCTCGTTGGATTACTTCTTATCGTCAATAA
GAAGATCAACTCAGGCAACCCCATTCCATTTGGGCCCTATATTGCGTTAGCAGGCTGGATAGCCATGATCTGGGGAGAGA
AAATCACTAACTGGTACCTCTCCACCCTTTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-142)

Type IV leader peptidase family (Peptidase_A24)

(153-261)


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

50.667

99.01

0.502
  pilD Vibrio campbellii strain DS40M4

49

99.01

0.485
  pilD Acinetobacter nosocomialis M2

48.432

94.719

0.459
  pilD Acinetobacter baumannii D1279779

48.084

94.719

0.455
  pilD Neisseria gonorrhoeae MS11

44.444

95.05

0.422

Multiple sequence alignment