Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ABFV67_RS02260 Genome accession   NZ_CP158116
Coordinates   475443..476309 (-) Length   288 a.a.
NCBI ID   WP_158138884.1    Uniprot ID   -
Organism   Vibrio metschnikovii strain IS021     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 470443..481309
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFV67_RS02240 (ABFV67_02240) parC 471448..473721 (+) 2274 WP_158138887.1 DNA topoisomerase IV subunit A -
  ABFV67_RS02245 (ABFV67_02245) yacG 473818..474015 (-) 198 WP_040903818.1 DNA gyrase inhibitor YacG -
  ABFV67_RS02250 (ABFV67_02250) zapD 474057..474797 (-) 741 WP_004394266.1 cell division protein ZapD -
  ABFV67_RS02255 (ABFV67_02255) coaE 474829..475437 (-) 609 WP_186463684.1 dephospho-CoA kinase -
  ABFV67_RS02260 (ABFV67_02260) pilD 475443..476309 (-) 867 WP_158138884.1 A24 family peptidase Machinery gene
  ABFV67_RS02265 (ABFV67_02265) pilC 476485..477711 (-) 1227 WP_154170154.1 type II secretion system F family protein Machinery gene
  ABFV67_RS02270 (ABFV67_02270) pilB 477730..479418 (-) 1689 WP_161438931.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFV67_RS02275 (ABFV67_02275) - 479457..479906 (-) 450 WP_154170158.1 pilin -
  ABFV67_RS02280 (ABFV67_02280) nadC 480189..481079 (-) 891 WP_186463683.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31889.16 Da        Isoelectric Point: 7.8853

>NTDB_id=1009812 ABFV67_RS02260 WP_158138884.1 475443..476309(-) (pilD) [Vibrio metschnikovii strain IS021]
MDIFYYIPWLFPALATLLGLIIGSFLNVVIYRLPTMMQREWRQECADAFPDYGITPPDGKLTLSTPRSTCPKCHTPLRIR
DNIPLISWLCLQGKCAHCSAPISARYPAIELLTAVSSLIIALHFGFSPYSVALLLFTYVLIAATFIDLDSMLLPDQLTLP
LLWAGISLALLNISPLSLNDAVIGAIAGYLCLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQLLPLIVLLSSLVGL
VFGLIQLRLQKQGINKAFPFGPYLAIAGWLAMLWGDKLIAWYLHSLVG

Nucleotide


Download         Length: 867 bp        

>NTDB_id=1009812 ABFV67_RS02260 WP_158138884.1 475443..476309(-) (pilD) [Vibrio metschnikovii strain IS021]
ATGGACATTTTTTACTATATACCTTGGCTATTTCCCGCCTTAGCAACGCTATTGGGGTTAATTATTGGTAGTTTTCTGAA
TGTGGTGATTTACCGCTTACCAACGATGATGCAACGAGAATGGCGTCAAGAATGTGCCGATGCTTTTCCTGACTATGGCA
TCACACCCCCTGATGGCAAGCTCACGCTCAGTACACCTCGTTCAACTTGCCCTAAATGTCATACGCCTTTGCGCATAAGA
GATAATATTCCACTTATCAGTTGGCTCTGCTTGCAAGGCAAATGCGCGCACTGTTCAGCACCGATCAGCGCTCGCTATCC
GGCGATTGAGCTATTAACTGCCGTGAGCAGTTTGATCATTGCTCTGCACTTTGGCTTTAGCCCTTATAGTGTGGCACTGC
TGCTGTTTACTTATGTGTTAATCGCCGCCACCTTCATTGATTTGGATAGTATGTTGCTGCCAGACCAATTGACTCTGCCT
TTACTGTGGGCAGGGATCAGCCTAGCACTGTTGAATATTAGCCCACTCTCACTGAATGATGCCGTGATTGGAGCGATAGC
AGGCTATCTTTGCTTATGGTCGATTTATTGGCTATTTAAGCTACTGACCGGTAAAGAAGGTATGGGCTATGGTGACTTTA
AGCTGCTTGCCGCGCTCGGAGCTTGGTTAGGTTGGCAATTATTACCGTTAATCGTATTACTCTCTTCACTGGTCGGTTTG
GTGTTTGGATTGATTCAATTGCGTTTGCAAAAACAAGGCATTAATAAAGCTTTCCCGTTTGGTCCTTACTTGGCGATTGC
TGGTTGGCTAGCGATGTTGTGGGGCGATAAACTGATCGCTTGGTATCTACATTCATTAGTAGGATAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)


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

76.736

100

0.767
  pilD Vibrio campbellii strain DS40M4

71.875

100

0.719
  pilD Acinetobacter nosocomialis M2

57.037

93.75

0.535
  pilD Acinetobacter baumannii D1279779

55.556

93.75

0.521
  pilD Neisseria gonorrhoeae MS11

45.105

99.306

0.448

Multiple sequence alignment