Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   D0511_RS04535 Genome accession   NZ_CP031761
Coordinates   1006835..1007713 (-) Length   292 a.a.
NCBI ID   WP_088531399.1    Uniprot ID   A0AAD0W2V7
Organism   Pseudoalteromonas piscicida strain DE2-A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1001835..1012713
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0511_RS04520 (D0511_04520) katG 1001881..1004064 (+) 2184 WP_088531401.1 catalase/peroxidase HPI -
  D0511_RS04525 (D0511_04525) pilB 1004410..1006086 (-) 1677 WP_117332834.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D0511_RS04530 (D0511_04530) coaE 1006196..1006825 (-) 630 WP_088531400.1 dephospho-CoA kinase -
  D0511_RS04535 (D0511_04535) pilD 1006835..1007713 (-) 879 WP_088531399.1 prepilin peptidase Machinery gene
  D0511_RS04540 (D0511_04540) pilC 1007848..1009074 (-) 1227 WP_088531398.1 type II secretion system F family protein Machinery gene
  D0511_RS23785 - 1009354..1010115 (-) 762 WP_151208242.1 hypothetical protein -
  D0511_RS04550 (D0511_04550) - 1010127..1010600 (-) 474 WP_088531396.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  D0511_RS04555 (D0511_04555) nadC 1011256..1012098 (-) 843 WP_088532285.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32489.80 Da        Isoelectric Point: 6.6755

>NTDB_id=311040 D0511_RS04535 WP_088531399.1 1006835..1007713(-) (pilD) [Pseudoalteromonas piscicida strain DE2-A]
MQDIINLMQTQLWYWLLTVGLVSLCIGSFLNVVILRLPKMMKQSWQSECRVLLADELPKQTAEAPVFNLIKPNSHCPSCK
TPIKAWQNIPLISWLLLKGKCNHCDASISVRYPLVELTTSLLSTWVAWHFGATLEATMYIVITWVLVALTVIDIDEMLLP
DQLTLPTLWLVLVASCFGVGIDPNSAIIGAAVGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAIFGALMGWQAILTIVLLS
SLVGAIIGSIQLSVQGRDKATPIPFGPYLAIAGWITLMYGEQLQLWYVNLIM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=311040 D0511_RS04535 WP_088531399.1 1006835..1007713(-) (pilD) [Pseudoalteromonas piscicida strain DE2-A]
ATGCAAGATATTATCAACTTGATGCAAACCCAGTTATGGTATTGGTTACTCACCGTTGGACTCGTTAGTCTTTGCATCGG
CAGCTTTCTCAATGTGGTTATTCTTCGCTTACCTAAAATGATGAAGCAGAGCTGGCAGTCAGAATGTCGCGTGTTGCTCG
CTGATGAGCTACCAAAACAAACCGCTGAAGCACCTGTTTTTAATTTAATTAAGCCAAACTCTCATTGCCCCAGCTGCAAA
ACGCCGATTAAGGCGTGGCAAAACATTCCACTGATCAGTTGGCTATTATTAAAAGGCAAATGCAACCACTGCGACGCGTC
AATCTCTGTCCGCTATCCTTTGGTAGAGCTAACAACCTCCCTACTCTCCACATGGGTTGCGTGGCATTTTGGTGCCACTT
TAGAAGCCACGATGTATATTGTGATTACTTGGGTATTAGTCGCACTTACGGTTATCGATATCGACGAAATGTTGCTGCCC
GATCAGTTAACGCTACCAACCTTATGGTTAGTGCTGGTTGCCAGTTGTTTTGGTGTTGGCATCGACCCCAATAGTGCCAT
TATTGGTGCAGCGGTTGGTTATTTAAGTTTATGGAGTGTGTATTGGCTCTTTAAATTACTCACAGGTAAAGAAGGCATGG
GCTATGGCGACTTTAAACTGCTGGCCATCTTTGGCGCATTAATGGGCTGGCAAGCAATCTTAACCATAGTGCTACTTTCA
AGTCTGGTCGGCGCAATCATTGGTAGCATCCAATTAAGCGTTCAAGGCCGAGATAAAGCCACGCCTATTCCGTTTGGTCC
TTACTTAGCCATTGCAGGTTGGATCACTCTAATGTATGGCGAACAGCTGCAGCTGTGGTACGTAAACCTAATAATGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(140-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-130)


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 Acinetobacter baumannii D1279779

53.979

98.973

0.534
  pilD Acinetobacter nosocomialis M2

53.979

98.973

0.534
  pilD Vibrio cholerae strain A1552

51.786

95.89

0.497
  pilD Vibrio campbellii strain DS40M4

49.828

99.658

0.497
  pilD Neisseria gonorrhoeae MS11

43.939

90.411

0.397

Multiple sequence alignment