Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GZI12_RS02020 Genome accession   NZ_AP019651
Coordinates   401302..402171 (-) Length   289 a.a.
NCBI ID   WP_162045548.1    Uniprot ID   -
Organism   Vibrio taketomensis strain C4III291     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 396302..407171
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GZI12_RS01985 rpsP 397390..397638 (+) 249 WP_162045543.1 30S ribosomal protein S16 -
  GZI12_RS01990 rimM 397667..398215 (+) 549 WP_075715362.1 ribosome maturation factor RimM -
  GZI12_RS01995 trmD 398243..398983 (+) 741 WP_162045544.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  GZI12_RS02000 rplS 399029..399382 (+) 354 WP_038173824.1 50S ribosomal protein L19 -
  GZI12_RS02005 yacG 399669..399863 (-) 195 WP_162045545.1 DNA gyrase inhibitor YacG -
  GZI12_RS02010 zapD 399917..400657 (-) 741 WP_162045546.1 cell division protein ZapD -
  GZI12_RS02015 coaE 400692..401300 (-) 609 WP_162045547.1 dephospho-CoA kinase -
  GZI12_RS02020 pilD 401302..402171 (-) 870 WP_162045548.1 A24 family peptidase Machinery gene
  GZI12_RS02025 pilC 402221..403438 (-) 1218 WP_162045549.1 type II secretion system F family protein Machinery gene
  GZI12_RS02030 pilB 403448..405130 (-) 1683 WP_162045550.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GZI12_RS02035 pilA 405133..405543 (-) 411 WP_162045551.1 type IV pilin subunit protein Machinery gene

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32412.69 Da        Isoelectric Point: 7.2550

>NTDB_id=73033 GZI12_RS02020 WP_162045548.1 401302..402171(-) (pilD) [Vibrio taketomensis strain C4III291]
MAVFTLYPWLFPLLATVFGLIVGSFLNVVIHRLPIMMEREWRRECQESFPEANLSVETGVYNLSIPRSACPSCNHQLRAI
DNIPVISWLMLRGKCHQCHTKISVRYPLVETLTASLCLLVALQFGFSYFAIALLFFTFVLVTATFIDLDTMLLPDQLTLP
LMWGGISLALLQISPVSLQDSIIGAIAGYLCLWSVYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQYLPMIILLSSLVGL
VFGIIQLRMQKKGIEMAFPFGPYLAIAGWVAALWGEQILTHYYQFLLGA

Nucleotide


Download         Length: 870 bp        

>NTDB_id=73033 GZI12_RS02020 WP_162045548.1 401302..402171(-) (pilD) [Vibrio taketomensis strain C4III291]
ATGGCTGTTTTTACGCTTTACCCGTGGCTATTTCCATTATTAGCCACGGTTTTCGGTCTGATCGTCGGTAGTTTTCTCAA
TGTTGTCATCCATCGCTTACCGATCATGATGGAACGTGAATGGCGTAGAGAGTGCCAAGAAAGCTTTCCTGAGGCCAATC
TAAGTGTCGAGACTGGCGTCTATAACCTGAGCATACCGCGCTCTGCTTGCCCAAGTTGCAATCATCAATTGCGAGCTATT
GATAATATCCCCGTGATTAGCTGGCTAATGCTAAGAGGTAAATGCCACCAGTGCCACACTAAGATCAGTGTTCGTTACCC
ACTTGTTGAAACCTTAACGGCCAGTCTTTGCTTGCTAGTCGCGCTGCAATTTGGCTTTAGCTACTTTGCGATCGCACTAC
TATTTTTTACTTTTGTTCTGGTCACAGCCACCTTTATTGATCTTGATACCATGCTGCTGCCAGATCAGTTAACCCTACCT
TTAATGTGGGGCGGCATCAGTTTAGCTCTATTGCAAATTAGCCCTGTTAGCCTACAAGACTCAATCATCGGTGCCATTGC
TGGTTATTTATGTTTGTGGAGTGTCTATTGGGCATTCAAATTACTTACTGGTAAAGAAGGCATGGGCTATGGTGATTTCA
AACTCCTTGCCGCGCTTGGCGCTTGGTTAGGCTGGCAATATTTGCCCATGATTATTTTACTCTCCTCTTTAGTTGGATTA
GTGTTTGGTATTATCCAGTTGAGAATGCAAAAGAAAGGCATTGAAATGGCCTTCCCTTTTGGTCCTTATCTTGCGATTGC
AGGTTGGGTTGCGGCGCTATGGGGCGAGCAAATTCTCACACACTACTATCAATTTCTTCTAGGGGCTTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

72.917

99.654

0.727
  pilD Vibrio cholerae strain A1552

68.056

99.654

0.678
  pilD Acinetobacter baumannii D1279779

51.331

91.003

0.467
  pilD Acinetobacter nosocomialis M2

51.331

91.003

0.467
  pilD Neisseria gonorrhoeae MS11

50.566

91.696

0.464

Multiple sequence alignment