Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   U876_RS02040 Genome accession   NZ_CP006870
Coordinates   449969..450841 (-) Length   290 a.a.
NCBI ID   WP_016352170.1    Uniprot ID   -
Organism   Aeromonas hydrophila NJ-35     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 444969..455841
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U876_RS02015 (U876_02060) - 446704..447888 (+) 1185 WP_016352174.1 tetratricopeptide repeat protein -
  U876_RS02020 (U876_02065) mutT 447897..448310 (+) 414 WP_016352173.1 8-oxo-dGTP diphosphatase MutT -
  U876_RS02025 (U876_02070) yacG 448371..448565 (-) 195 WP_005305661.1 DNA gyrase inhibitor YacG -
  U876_RS02030 (U876_02075) zapD 448575..449297 (-) 723 WP_016352172.1 cell division protein ZapD -
  U876_RS02035 (U876_02080) coaE 449335..449949 (-) 615 WP_016352171.1 dephospho-CoA kinase -
  U876_RS02040 (U876_02085) pilD 449969..450841 (-) 873 WP_016352170.1 A24 family peptidase Machinery gene
  U876_RS02045 (U876_02090) pilC 450864..452105 (-) 1242 WP_016352169.1 type II secretion system F family protein Machinery gene
  U876_RS02050 (U876_02095) pilB 452221..453927 (-) 1707 WP_016352168.1 PilB family type IVa pilus assembly ATPase TapB Machinery gene
  U876_RS23915 tapA 453934..454356 (-) 423 WP_016352167.1 type IVa pilus major pilin TapA -
  U876_RS02065 (U876_02105) nadC 454679..455536 (-) 858 WP_016352165.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32464.76 Da        Isoelectric Point: 6.7410

>NTDB_id=114667 U876_RS02040 WP_016352170.1 449969..450841(-) (pilD) [Aeromonas hydrophila NJ-35]
MLLITDVFHSLPWLYFSLVFLFSLMIGSFLNVVIHRLPIMLEREWQAEYLGYFNPETQPQQEERYNLMVPRSACPHCGHA
ITAIENIPLLSWLWLKGRCRECQAPISARYPLVELLTALLSLVVTATFAPGWGLLAALLLTWVLVALTFIDLDKMLLPDQ
LTLPLLWGGLLFNLAGGFVPLADAVIGAMAGYLVLWSLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQALPIVLLLSSL
VGAFIGIGLILLRNHHQNKPIPFGPYLAIAGWIALLWGDTITRWYLATFL

Nucleotide


Download         Length: 873 bp        

>NTDB_id=114667 U876_RS02040 WP_016352170.1 449969..450841(-) (pilD) [Aeromonas hydrophila NJ-35]
ATGTTGCTGATCACTGACGTTTTTCACAGCTTGCCCTGGCTCTATTTCTCGCTGGTATTCCTCTTTTCTCTGATGATCGG
CAGTTTTCTCAACGTGGTCATCCATCGCCTGCCCATCATGCTGGAGCGGGAGTGGCAGGCCGAATATCTCGGCTATTTCA
ATCCAGAGACACAGCCGCAGCAGGAAGAACGCTACAACCTGATGGTGCCGCGTTCTGCCTGTCCTCATTGCGGCCACGCA
ATTACGGCCATAGAGAACATCCCCCTACTCAGCTGGCTCTGGCTCAAGGGGCGCTGCCGTGAATGCCAGGCCCCTATCTC
GGCCCGTTATCCTCTGGTAGAGCTGCTGACGGCCCTGCTCTCGCTGGTCGTCACCGCAACATTCGCACCGGGCTGGGGCT
TGCTGGCCGCCCTGCTGCTCACCTGGGTACTGGTGGCGCTCACTTTCATCGATCTGGACAAGATGCTGCTGCCTGACCAG
CTGACCCTGCCATTGCTATGGGGCGGTCTGCTGTTCAATTTGGCTGGGGGATTTGTACCGCTGGCCGATGCGGTGATCGG
TGCGATGGCTGGCTATCTGGTGCTCTGGAGCCTCTACTGGGCCTTCAAGTTGCTGACCGGCAAGGAAGGGATGGGCTATG
GCGACTTCAAGCTGTTGGCGGCGCTGGGTGCCTGGCTCGGCTGGCAGGCACTGCCCATCGTGTTGCTGCTCTCGTCGCTG
GTTGGCGCTTTCATCGGGATTGGTCTCATCCTGCTGCGCAACCATCATCAGAACAAACCCATCCCCTTCGGCCCCTATCT
GGCCATCGCCGGCTGGATCGCGCTGCTGTGGGGCGATACCATCACCCGCTGGTACCTCGCGACGTTTCTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-128)

Type IV leader peptidase family (Peptidase_A24)

(139-247)


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

60.839

98.621

0.6
  pilD Vibrio campbellii strain DS40M4

55.594

98.621

0.548
  pilD Acinetobacter baumannii D1279779

54.035

98.276

0.531
  pilD Acinetobacter nosocomialis M2

54.035

98.276

0.531
  pilD Neisseria gonorrhoeae MS11

48.872

91.724

0.448

Multiple sequence alignment