Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   K5638_RS02275 Genome accession   NZ_AP024614
Coordinates   482350..483264 (-) Length   304 a.a.
NCBI ID   WP_221060509.1    Uniprot ID   -
Organism   Shewanella algae strain TUM17382     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 477350..488264
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5638_RS22525 (TUM17382_04290) - 480000..480272 (-) 273 Protein_418 transposase -
  K5638_RS02255 (TUM17382_04300) mutT 480346..480744 (-) 399 WP_144128772.1 8-oxo-dGTP diphosphatase MutT -
  K5638_RS02260 (TUM17382_04310) yacG 480744..480956 (-) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  K5638_RS02265 (TUM17382_04320) zapD 481001..481741 (-) 741 WP_028779562.1 cell division protein ZapD -
  K5638_RS02270 (TUM17382_04330) coaE 481738..482349 (-) 612 WP_144133415.1 dephospho-CoA kinase -
  K5638_RS02275 (TUM17382_04340) pilD 482350..483264 (-) 915 WP_221060509.1 A24 family peptidase Machinery gene
  K5638_RS02280 (TUM17382_04350) pilC 483335..484603 (-) 1269 WP_221060510.1 type II secretion system F family protein Machinery gene
  K5638_RS02285 (TUM17382_04360) pilB 484759..486465 (-) 1707 WP_221060511.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K5638_RS02290 (TUM17382_04370) pilA/pilAI 486484..486918 (-) 435 WP_144128766.1 pilin Machinery gene

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33857.20 Da        Isoelectric Point: 6.8264

>NTDB_id=86571 K5638_RS02275 WP_221060509.1 482350..483264(-) (pilD) [Shewanella algae strain TUM17382]
MSEFIAVLSHNQWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLQEYQPEFAKQLGEAKLNAPIDNYPAKY
NLLLPKSACPNCGAHIKPWHNLPIIGYLLLGGKCASCNTAISARYPIFELLTALLISTLGWYFGPTLQFVYATILTFGLI
ALSGIDLDEMLLPDQITLPLLWLGLLVNISGTFTNLTDATIGAAAGYLSLWSVYWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGVLLILFKNLNRGNPIPFGPYIAIAGWVALMWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=86571 K5638_RS02275 WP_221060509.1 482350..483264(-) (pilD) [Shewanella algae strain TUM17382]
ATGTCAGAATTTATTGCCGTATTGAGCCACAACCAGTGGCTCTTTCTTGTTCTCTGTTTTTTGTTTGCCTCTGTAATAGG
CAGCTTTCTCAATGTGGTGATCCACCGCCTGCCGGTAATGATGAAGCGCGAATGGCAGCAGGAATGCAATCAATACCTGC
AGGAATATCAACCCGAATTCGCCAAACAGCTGGGTGAAGCCAAGCTTAATGCACCAATAGATAACTATCCGGCCAAATAC
AATCTGTTACTGCCGAAGTCTGCCTGCCCCAACTGTGGCGCCCATATCAAACCCTGGCACAACCTACCCATAATCGGCTA
TTTGTTGCTTGGCGGTAAATGCGCCTCCTGCAACACAGCTATTTCAGCGAGATACCCGATATTTGAGCTGCTGACCGCCC
TGCTTATCAGTACTCTCGGTTGGTATTTTGGCCCGACACTGCAGTTTGTTTACGCCACTATTCTCACCTTTGGATTGATA
GCCCTCAGCGGGATAGATTTGGATGAAATGCTGCTGCCGGATCAGATTACCCTGCCGCTACTGTGGCTTGGTTTACTGGT
TAATATTTCGGGCACCTTTACTAATCTGACCGATGCCACCATAGGGGCCGCTGCCGGCTATTTAAGCCTCTGGTCGGTCT
ACTGGCTATTTAAACTGCTCACCGGCAAGGAAGGCATGGGCTATGGCGACTTCAAGCTGATGGCACTGTTTGGCGCCTGG
CTTGGCTGGCAGATGTTACCTCTAATTATTCTGCTCTCTTCTCTGGTCGGTGCCCTAGTAGGCGTGTTACTCATTTTGTT
CAAGAACCTTAATCGGGGTAACCCTATCCCCTTTGGCCCTTATATTGCTATCGCAGGTTGGGTCGCTCTGATGTGGGGGC
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