Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VA613_RS12605 Genome accession   NZ_CP141769
Coordinates   2523051..2523902 (-) Length   283 a.a.
NCBI ID   WP_324779364.1    Uniprot ID   -
Organism   Thiobacillus sedimenti strain SCUT-2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2518051..2528902
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VA613_RS12580 (VA613_12580) ilvA 2519192..2520709 (-) 1518 WP_324779359.1 threonine ammonia-lyase, biosynthetic -
  VA613_RS12585 (VA613_12585) rpiA 2520784..2521440 (+) 657 WP_324779360.1 ribose-5-phosphate isomerase RpiA -
  VA613_RS12590 (VA613_12590) - 2521444..2521638 (-) 195 WP_324779361.1 DNA gyrase inhibitor YacG -
  VA613_RS12595 (VA613_12595) zapD 2521635..2522390 (-) 756 WP_324779362.1 cell division protein ZapD -
  VA613_RS12600 (VA613_12600) coaE 2522443..2523051 (-) 609 WP_324779363.1 dephospho-CoA kinase -
  VA613_RS12605 (VA613_12605) pilD 2523051..2523902 (-) 852 WP_324779364.1 A24 family peptidase Machinery gene
  VA613_RS12610 (VA613_12610) pilC 2523902..2525125 (-) 1224 WP_324779365.1 type II secretion system F family protein Machinery gene
  VA613_RS12615 (VA613_12615) pilB 2525135..2526847 (-) 1713 WP_324779366.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VA613_RS12620 (VA613_12620) - 2526946..2528244 (-) 1299 WP_324779367.1 HlyC/CorC family transporter -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30672.49 Da        Isoelectric Point: 7.6655

>NTDB_id=919312 VA613_RS12605 WP_324779364.1 2523051..2523902(-) (pilD) [Thiobacillus sedimenti strain SCUT-2]
MDLLLAAPALFTGLVFLFGLLVGSFLNVVIHRLPRMMEAEWKAQCAELRGEAAPEAHRYNLWVPRSACPQCGHQITALEN
IPLLSWLWLRGRCSGCGTPISARYPLVELLTALLSAAVAWKWGWSVQAAGALLLVWALVALAFIDLDTTLLPDSLTLPLL
WAGLLFNLDARFTSLPDAVVGAVAGYLLLWSVYWLFKLATGKDGMGFGDFKLLAAIGAWLGWQMLPVTLLLSSVVGAVIG
IGMVVLVKHDRRVPIPFGPYLAGGGLVALFFGADLTRAYLAQF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=919312 VA613_RS12605 WP_324779364.1 2523051..2523902(-) (pilD) [Thiobacillus sedimenti strain SCUT-2]
ATGGATTTGCTGCTGGCGGCGCCAGCCCTTTTCACGGGGCTGGTTTTCCTGTTCGGCCTGCTGGTCGGCAGCTTCCTGAA
TGTCGTCATCCATCGCCTGCCCAGAATGATGGAGGCCGAGTGGAAGGCGCAATGCGCCGAACTGCGCGGAGAAGCCGCGC
CGGAGGCGCACCGCTACAACCTCTGGGTGCCGCGTTCGGCCTGCCCCCAATGCGGCCACCAGATCACGGCGCTGGAAAAT
ATCCCGCTGCTGTCCTGGCTGTGGCTGCGAGGGCGCTGCTCGGGCTGCGGCACGCCGATCAGTGCCCGCTACCCGTTGGT
GGAACTCCTGACGGCACTGCTTTCGGCCGCCGTCGCCTGGAAATGGGGCTGGAGCGTGCAGGCCGCCGGGGCGCTGCTGC
TGGTCTGGGCGCTGGTTGCGCTGGCGTTCATCGACCTGGATACCACGCTGCTGCCCGACAGCCTCACGCTTCCGCTGCTG
TGGGCAGGCCTATTGTTCAATCTGGATGCCCGGTTCACCAGCCTGCCCGATGCCGTCGTCGGGGCCGTCGCCGGCTATCT
GCTGCTGTGGTCCGTGTACTGGCTGTTCAAACTGGCGACCGGCAAGGACGGCATGGGCTTCGGTGACTTCAAGCTGTTGG
CGGCCATCGGCGCCTGGCTGGGCTGGCAGATGCTGCCCGTTACCCTGCTGCTGTCCTCTGTTGTCGGCGCAGTGATCGGC
ATCGGGATGGTGGTGCTGGTCAAGCATGATCGGCGCGTGCCGATTCCGTTCGGCCCCTATCTGGCGGGTGGCGGGCTGGT
CGCGCTGTTCTTCGGCGCCGACCTGACGCGGGCCTACCTCGCACAATTCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(132-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


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

55.634

100

0.558
  pilD Vibrio campbellii strain DS40M4

52.632

100

0.53
  pilD Acinetobacter nosocomialis M2

50

94.7

0.473
  pilD Acinetobacter baumannii D1279779

49.627

94.7

0.47
  pilD Neisseria gonorrhoeae MS11

51.793

88.693

0.459