Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RDV53_RS06535 Genome accession   NZ_CP133470
Coordinates   1322896..1323573 (-) Length   225 a.a.
NCBI ID   WP_005695507.1    Uniprot ID   -
Organism   Haemophilus parainfluenzae ATCC 33392 strain DSM 8978     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1317896..1328573
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV53_RS06505 (RDV53_06505) mreC 1318770..1319834 (+) 1065 WP_005695499.1 rod shape-determining protein MreC -
  RDV53_RS06510 (RDV53_06510) mreD 1319834..1320322 (+) 489 WP_005695501.1 rod shape-determining protein MreD -
  RDV53_RS06515 (RDV53_06515) rhlB 1320363..1321622 (-) 1260 WP_005695503.1 ATP-dependent RNA helicase RhlB -
  RDV53_RS06520 (RDV53_06520) - 1321712..1321993 (-) 282 WP_032822874.1 GNAT family N-acetyltransferase -
  RDV53_RS06525 (RDV53_06525) yacG 1321990..1322196 (-) 207 WP_005695505.1 DNA gyrase inhibitor YacG -
  RDV53_RS06530 (RDV53_06530) coaE 1322186..1322809 (-) 624 WP_005695506.1 dephospho-CoA kinase -
  RDV53_RS06535 (RDV53_06535) pilD 1322896..1323573 (-) 678 WP_005695507.1 A24 family peptidase Machinery gene
  RDV53_RS06540 (RDV53_06540) pilC 1323570..1324793 (-) 1224 WP_005695508.1 type II secretion system F family protein Machinery gene
  RDV53_RS06545 (RDV53_06545) pilB 1324802..1326181 (-) 1380 WP_005695509.1 GspE/PulE family protein Machinery gene
  RDV53_RS06550 (RDV53_06550) pilA 1326188..1326631 (-) 444 WP_005697917.1 prepilin peptidase-dependent pilin Machinery gene
  RDV53_RS06555 (RDV53_06555) ampD 1326774..1327337 (+) 564 WP_005695512.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RDV53_RS06560 (RDV53_06560) rppH 1327822..1328415 (+) 594 WP_005695513.1 RNA pyrophosphohydrolase -

Sequence

Protein


Download         Length: 225 a.a.        Molecular weight: 26263.16 Da        Isoelectric Point: 6.3162

>NTDB_id=874445 RDV53_RS06535 WP_005695507.1 1322896..1323573(-) (pilD) [Haemophilus parainfluenzae ATCC 33392 strain DSM 8978]
MMTFAFFLLGGLAGIFAWFYIDRFIPNLQQEIYLNYVELYPENRPIFHSEKALIQSQKCGHIFRYFLGFGLCFAVLDYFL
QDELFTLWLAITLSLIFVISWLDWHYQLISPTPCLFLFFLGLFGAHQEFSILTLSQSLESAVSFFSVFYIIYHLSKWFYK
KEALGRGDYWLALGIGTYLTIEYLPLFLFIACLLGIIVYWISRKPVLPFAPFLCISLIVTSAITL

Nucleotide


Download         Length: 678 bp        

>NTDB_id=874445 RDV53_RS06535 WP_005695507.1 1322896..1323573(-) (pilD) [Haemophilus parainfluenzae ATCC 33392 strain DSM 8978]
ATGATGACATTCGCCTTTTTCTTATTGGGTGGTTTAGCGGGCATCTTTGCTTGGTTTTATATTGATCGTTTTATTCCTAA
CCTTCAACAAGAAATTTATCTGAACTATGTCGAACTTTATCCCGAAAACAGGCCTATTTTCCATAGCGAAAAAGCATTGA
TTCAATCTCAAAAGTGTGGTCATATTTTTCGTTATTTTTTAGGATTCGGACTCTGTTTTGCTGTACTCGATTATTTTCTT
CAGGATGAATTGTTTACTTTATGGCTCGCGATTACGCTTAGTCTCATCTTTGTTATCAGTTGGCTAGACTGGCATTATCA
ACTGATTTCACCAACACCTTGCCTATTTTTATTTTTCCTGGGGCTATTCGGCGCACATCAAGAATTTTCAATTCTGACGC
TTTCTCAAAGTTTAGAAAGTGCGGTTAGTTTTTTCAGTGTTTTTTATATCATCTATCATTTGTCTAAATGGTTTTATAAG
AAGGAAGCGTTAGGTCGTGGCGATTATTGGCTCGCTTTGGGAATCGGCACTTATCTCACCATCGAATACTTACCACTTTT
CTTATTCATTGCCTGTCTATTAGGCATAATAGTCTATTGGATTTCTCGTAAACCTGTTTTACCTTTTGCGCCCTTTCTTT
GCATATCGTTAATCGTCACCAGTGCAATAACCTTATAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(92-198)


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 Haemophilus influenzae Rd KW20

54.299

98.222

0.533
  pilD Haemophilus influenzae 86-028NP

53.394

98.222

0.524