Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   K5625_RS19465 Genome accession   NZ_AP024609
Coordinates   4324829..4325743 (+) Length   304 a.a.
NCBI ID   WP_221051586.1    Uniprot ID   -
Organism   Shewanella algae strain ATCC 49138     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4319829..4330743
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5625_RS19450 (TUM3811_38580) - 4321201..4321623 (+) 423 WP_144133982.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  K5625_RS19455 (TUM3811_38590) pilB 4321623..4323329 (+) 1707 WP_221051585.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K5625_RS19460 (TUM3811_38600) pilC 4323488..4324753 (+) 1266 WP_144133986.1 type II secretion system F family protein Machinery gene
  K5625_RS19465 (TUM3811_38610) pilD 4324829..4325743 (+) 915 WP_221051586.1 A24 family peptidase Machinery gene
  K5625_RS19470 (TUM3811_38620) coaE 4325744..4326355 (+) 612 WP_025012056.1 dephospho-CoA kinase -
  K5625_RS19475 (TUM3811_38630) zapD 4326352..4327092 (+) 741 WP_028779562.1 cell division protein ZapD -
  K5625_RS19480 (TUM3811_38640) yacG 4327137..4327349 (+) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  K5625_RS19485 (TUM3811_38650) mutT 4327349..4327747 (+) 399 WP_025012058.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33825.14 Da        Isoelectric Point: 6.8264

>NTDB_id=86496 K5625_RS19465 WP_221051586.1 4324829..4325743(+) (pilD) [Shewanella algae strain ATCC 49138]
MSEFIAVLSHNQWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLQEYQPEFAKQLGEAKLNAPIDNYPAKY
NLILPKSACPNCGAHIKPWHNLPIIGYLLLGGKCASCNTAISARYPIFELLTALLISTLGWYFGPTLQFVYATILTFGLI
ALSGIDLDEMLLPDQITLPLLWLGLLVNISGTFTNLTDATIGAAAGYLSLWSVYWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGVLLILFKNLNRGNPIPFGPYIAIAGWVALVWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=86496 K5625_RS19465 WP_221051586.1 4324829..4325743(+) (pilD) [Shewanella algae strain ATCC 49138]
ATGTCAGAATTTATTGCCGTATTGAGCCACAACCAGTGGCTCTTTCTTGTTCTCTGTTTTTTGTTTGCCTCTGTGATCGG
CAGCTTTCTCAATGTGGTGATCCACCGCTTGCCGGTAATGATGAAGCGCGAATGGCAGCAGGAATGCAATCAATACCTGC
AGGAATATCAACCCGAATTCGCCAAACAGCTGGGTGAAGCCAAGCTTAATGCACCGATAGATAACTATCCGGCCAAATAC
AATCTGATACTGCCGAAGTCTGCCTGCCCCAACTGTGGCGCCCATATCAAACCCTGGCACAACCTCCCCATAATCGGCTA
TTTGTTGCTTGGCGGTAAATGCGCCTCCTGCAACACAGCTATTTCAGCAAGATACCCAATATTTGAGCTGCTGACCGCCC
TGCTTATCAGTACTCTCGGTTGGTATTTTGGCCCGACACTGCAGTTTGTTTACGCCACTATTCTCACCTTCGGATTGATA
GCCCTCAGCGGGATAGATTTGGATGAAATGCTGCTGCCGGATCAGATTACCCTGCCGCTACTGTGGCTTGGTTTACTGGT
TAATATCTCAGGCACCTTTACTAATCTGACCGATGCCACCATAGGGGCCGCTGCCGGCTATTTAAGCCTCTGGTCGGTCT
ACTGGCTATTTAAACTGCTCACCGGCAAGGAAGGCATGGGCTATGGCGATTTCAAGCTGATGGCATTGTTTGGCGCCTGG
CTTGGCTGGCAGATGTTACCTCTAATTATTCTGCTCTCTTCTCTGGTCGGTGCCCTAGTAGGCGTTTTACTTATTCTGTT
CAAGAACCTTAATCGGGGTAACCCTATCCCCTTTGGCCCTTATATTGCTATCGCAGGTTGGGTCGCTTTGGTGTGGGGGC
AACAGATTGTCGACTGGTATTTGGGAACACTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)


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 campbellii strain DS40M4

49.169

99.013

0.487
  pilD Vibrio cholerae strain A1552

50

96.053

0.48
  pilD Acinetobacter nosocomialis M2

48.013

99.342

0.477
  pilD Acinetobacter baumannii D1279779

47.682

99.342

0.474
  pilD Neisseria gonorrhoeae MS11

44.84

92.434

0.414

Multiple sequence alignment