Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EQU24_RS03355 Genome accession   NZ_CP035467
Coordinates   712797..713699 (+) Length   300 a.a.
NCBI ID   WP_017840853.1    Uniprot ID   -
Organism   Methylotuvimicrobium buryatense strain 5GB1C     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 707797..718699
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EQU24_RS03345 (EQU24_03345) pilB 709700..711418 (+) 1719 WP_017840855.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EQU24_RS03350 (EQU24_03350) pilC 711421..712641 (+) 1221 WP_017840854.1 type II secretion system F family protein Machinery gene
  EQU24_RS03355 (EQU24_03355) pilD 712797..713699 (+) 903 WP_017840853.1 A24 family peptidase Machinery gene
  EQU24_RS03360 (EQU24_03360) coaE 713704..714309 (+) 606 WP_040575649.1 dephospho-CoA kinase -
  EQU24_RS03365 (EQU24_03365) zapD 714313..715083 (+) 771 WP_026130183.1 cell division protein ZapD -
  EQU24_RS03370 (EQU24_03370) yacG 715083..715289 (+) 207 WP_014147184.1 DNA gyrase inhibitor YacG -
  EQU24_RS03375 (EQU24_03375) - 715604..716026 (-) 423 WP_017840850.1 hypothetical protein -
  EQU24_RS03380 (EQU24_03380) - 716026..717780 (-) 1755 WP_017840849.1 Hsp70 family protein -
  EQU24_RS03385 (EQU24_03385) grpE 717798..718448 (-) 651 WP_017840848.1 nucleotide exchange factor GrpE -

Sequence

Protein


Download         Length: 300 a.a.        Molecular weight: 33046.18 Da        Isoelectric Point: 6.6212

>NTDB_id=342643 EQU24_RS03355 WP_017840853.1 712797..713699(+) (pilD) [Methylotuvimicrobium buryatense strain 5GB1C]
MQGLEIFADSPAALMALIGIVGLMVGSFLNVVIYRLPIMMQKSWRRECIDYLQSTGDMQCAGLDTGSGEADSKFNLVFPL
SRCPHCETPIKPYQNIPVLSYLLLKGRCAQCNAPISKRYPIIEGLTGFFSVLIAWHFGYSVEALFALILTWSLIALSAID
IDHQLLPDSITLPLLWLGLFLSLFDIFIDTHSSIIGAIAGYLSLWTVYHGFKLLTGKEGMGYGDFKLLAMFGAWLGWQYI
LPIILLSSLVGAVTGIAMVILVKRDKNIPIPFGPYLAAAGWIALLWGDKINQAYLNFAGL

Nucleotide


Download         Length: 903 bp        

>NTDB_id=342643 EQU24_RS03355 WP_017840853.1 712797..713699(+) (pilD) [Methylotuvimicrobium buryatense strain 5GB1C]
ATGCAAGGACTTGAAATATTTGCCGACTCGCCGGCTGCATTAATGGCTTTAATCGGTATTGTCGGTCTCATGGTTGGTAG
TTTTCTGAACGTCGTCATTTATCGTTTGCCGATTATGATGCAAAAAAGTTGGCGCCGCGAGTGCATCGATTATTTGCAGT
CCACGGGTGATATGCAATGTGCCGGTCTCGATACTGGAAGTGGGGAAGCCGATTCAAAATTTAACTTAGTCTTTCCATTG
TCACGCTGTCCCCATTGCGAAACCCCGATAAAGCCTTATCAAAATATTCCGGTGCTCAGCTATTTGTTGTTGAAAGGCCG
TTGCGCTCAATGCAATGCGCCGATATCCAAACGCTATCCTATTATCGAGGGCTTAACCGGTTTTTTTTCGGTTTTAATCG
CCTGGCATTTCGGTTATTCGGTAGAGGCGCTGTTCGCGCTCATACTCACCTGGTCCTTGATTGCGCTGAGTGCGATCGAT
ATTGACCATCAACTTTTACCGGATTCGATTACGTTACCTTTACTTTGGTTGGGTTTGTTCTTAAGTCTTTTCGATATCTT
TATCGATACGCATTCCTCGATTATCGGTGCTATCGCCGGTTATTTATCGCTTTGGACGGTTTATCATGGTTTCAAGCTGT
TGACCGGCAAAGAAGGCATGGGATACGGCGATTTCAAGCTGTTGGCAATGTTTGGGGCTTGGTTGGGTTGGCAATATATC
CTGCCGATTATTTTGCTGTCATCCCTGGTCGGTGCCGTTACCGGCATTGCAATGGTTATTTTGGTAAAGCGCGACAAGAA
TATTCCAATTCCATTCGGTCCTTACTTGGCCGCGGCCGGGTGGATCGCTTTATTGTGGGGCGATAAAATCAATCAGGCTT
ATCTCAATTTTGCCGGATTATAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-137)

Type IV leader peptidase family (Peptidase_A24)

(147-256)


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

50.34

98

0.493
  pilD Vibrio campbellii strain DS40M4

49.66

98

0.487
  pilD Acinetobacter baumannii D1279779

49.481

96.333

0.477
  pilD Acinetobacter nosocomialis M2

49.481

96.333

0.477
  pilD Neisseria gonorrhoeae MS11

47.535

94.667

0.45

Multiple sequence alignment