Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   THIVI_RS01165 Genome accession   NC_018012
Coordinates   249334..250236 (-) Length   300 a.a.
NCBI ID   WP_014776817.1    Uniprot ID   I3Y5P1
Organism   Thiocystis violascens DSM 198     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 244334..255236
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  THIVI_RS01145 (Thivi_0236) pyrC 244763..245839 (-) 1077 WP_014776813.1 dihydroorotase -
  THIVI_RS01150 (Thivi_0237) - 246279..248159 (+) 1881 WP_014776814.1 phosphoenolpyruvate carboxykinase (GTP) -
  THIVI_RS01155 (Thivi_0238) - 248285..248554 (-) 270 WP_014776815.1 hypothetical protein -
  THIVI_RS01160 (Thivi_0239) coaE 248648..249247 (-) 600 WP_014776816.1 dephospho-CoA kinase -
  THIVI_RS01165 (Thivi_0240) pilD 249334..250236 (-) 903 WP_014776817.1 A24 family peptidase Machinery gene
  THIVI_RS01170 (Thivi_0241) pilC 250242..251498 (-) 1257 WP_014776818.1 type II secretion system F family protein Machinery gene
  THIVI_RS01175 (Thivi_0242) pilB 251519..253234 (-) 1716 WP_014776819.1 type IV-A pilus assembly ATPase PilB Machinery gene
  THIVI_RS01180 (Thivi_0243) - 253248..254081 (-) 834 WP_014776820.1 NYN domain-containing protein -

Sequence

Protein


Download         Length: 300 a.a.        Molecular weight: 32435.42 Da        Isoelectric Point: 6.4714

>NTDB_id=51638 THIVI_RS01165 WP_014776817.1 249334..250236(-) (pilD) [Thiocystis violascens DSM 198]
MSAFAWIELLEQNPALLAVVAILFGLIIGSFLNVVILRLPRMMEEEWARDCAELAADRAAANATVPEPSTPRLSLSAPPS
TCPACGHRIRAHENIPILSYLLLRGRCSSCGVGISPRYPIIEGFTALLTLAVVMQFGLTWQTPPALLLTWALIALALIDY
DTQLLPDSIVLPLVWLGLILSLFGLFADSQAAIVGAVAGYLSLWSVFQLFRLATGKEGMGYGDFKLLALFGAWLGWQFLP
QVILLSALTGALFGVILIAVGRHHRDKPMPFGPFLAAAGWISLIWGDAINQAYLRISGLG

Nucleotide


Download         Length: 903 bp        

>NTDB_id=51638 THIVI_RS01165 WP_014776817.1 249334..250236(-) (pilD) [Thiocystis violascens DSM 198]
ATGTCCGCATTCGCCTGGATCGAACTACTCGAACAGAACCCCGCGCTGCTCGCCGTCGTGGCCATCCTGTTCGGCCTGAT
TATCGGCAGTTTCCTGAACGTCGTGATCCTGCGTCTGCCCAGGATGATGGAGGAGGAATGGGCGCGCGACTGCGCCGAAC
TTGCCGCAGACCGCGCTGCTGCCAACGCGACTGTGCCGGAACCGTCCACGCCCCGGCTGTCGCTGTCCGCGCCGCCCTCC
ACCTGCCCGGCCTGCGGGCACCGCATTCGCGCCCATGAGAACATCCCGATCCTGAGCTATCTGCTTCTGCGCGGGCGCTG
TTCGTCCTGCGGCGTCGGCATCAGTCCGCGCTATCCCATCATTGAGGGCTTCACGGCCCTGCTGACGCTGGCCGTCGTGA
TGCAATTCGGCCTGACCTGGCAAACGCCGCCGGCCCTGCTGTTGACCTGGGCGCTGATCGCCCTGGCACTCATCGACTAC
GACACTCAGCTTCTGCCCGACAGCATCGTCCTACCCCTGGTCTGGCTGGGCCTGATCCTGAGCCTGTTCGGACTCTTCGC
CGACAGCCAGGCCGCCATCGTGGGCGCGGTGGCCGGGTATCTGAGCCTGTGGAGCGTCTTTCAACTCTTCCGGCTCGCCA
CTGGCAAGGAGGGCATGGGCTACGGCGACTTCAAGCTGCTGGCGCTCTTTGGTGCCTGGCTCGGCTGGCAGTTCCTGCCG
CAGGTCATCCTGCTCTCCGCCCTGACCGGCGCGCTCTTCGGCGTGATCCTGATCGCCGTCGGGCGCCACCACAGGGATAA
ACCCATGCCCTTCGGCCCTTTTCTAGCCGCGGCGGGCTGGATCAGCCTGATCTGGGGAGACGCGATCAATCAGGCGTATC
TGCGAATCAGCGGACTTGGATAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(23-136)

Type IV leader peptidase family (Peptidase_A24)

(147-255)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB I3Y5P1

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

50.512

97.667

0.493
  pilD Vibrio campbellii strain DS40M4

50.865

96.333

0.49
  pilD Acinetobacter nosocomialis M2

49.823

94.333

0.47
  pilD Acinetobacter baumannii D1279779

49.47

94.333

0.467
  pilD Neisseria gonorrhoeae MS11

47.445

91.333

0.433

Multiple sequence alignment