Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   K5627_RS02245 Genome accession   NZ_AP024616
Coordinates   479385..480299 (-) Length   304 a.a.
NCBI ID   WP_144164451.1    Uniprot ID   -
Organism   Shewanella algae strain TUM17384     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 474385..485299
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5627_RS02220 - 477042..477309 (-) 268 Protein_412 transposase -
  K5627_RS02225 (TUM17384_04180) mutT 477381..477779 (-) 399 WP_219031309.1 8-oxo-dGTP diphosphatase MutT -
  K5627_RS02230 (TUM17384_04190) yacG 477779..477991 (-) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  K5627_RS02235 (TUM17384_04200) zapD 478036..478776 (-) 741 WP_028779562.1 cell division protein ZapD -
  K5627_RS02240 (TUM17384_04210) coaE 478773..479384 (-) 612 WP_054744929.1 dephospho-CoA kinase -
  K5627_RS02245 (TUM17384_04220) pilD 479385..480299 (-) 915 WP_144164451.1 A24 family peptidase Machinery gene
  K5627_RS02250 (TUM17384_04230) pilC 480375..481649 (-) 1275 WP_221059354.1 type II secretion system F family protein Machinery gene
  K5627_RS02255 (TUM17384_04240) pilB 481810..483516 (-) 1707 WP_221059731.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K5627_RS02260 (TUM17384_04250) - 483530..483991 (-) 462 WP_221059355.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33839.21 Da        Isoelectric Point: 7.2147

>NTDB_id=86621 K5627_RS02245 WP_144164451.1 479385..480299(-) (pilD) [Shewanella algae strain TUM17384]
MSEFIAVLSHNQWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLQEYQPEFAKQLGEAKLNAPIDNYPAKY
NLILPKSACPKCGAHIKPWHNLPIIGYLLLGGKCASCNTAISARYPIFELLTALLISTLGWYFGPTLQFVYATILTFGLI
ALSGIDLDEMLLPDQITLPLLWLGLLVNISGTFTNLTDATIGAAAGYLSLWSVYWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGVLLILFKNLNRGNPIPFGPYIAIAGWVALVWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=86621 K5627_RS02245 WP_144164451.1 479385..480299(-) (pilD) [Shewanella algae strain TUM17384]
ATGTCAGAATTTATAGCCGTATTGAGCCACAACCAGTGGCTCTTTCTTGTTCTCTGCTTTTTGTTTGCTTCTGTAATAGG
CAGCTTTCTCAATGTGGTGATCCACCGCCTGCCGGTAATGATGAAGCGCGAATGGCAGCAGGAATGCAATCAATACCTGC
AGGAATATCAACCCGAATTCGCCAAACAGCTGGGTGAAGCCAAGCTTAATGCACCAATAGATAACTATCCGGCCAAATAC
AATCTGATACTGCCGAAGTCTGCCTGCCCCAAGTGTGGCGCCCATATCAAACCCTGGCACAACCTCCCCATAATCGGCTA
TTTGTTGCTTGGCGGTAAATGCGCCTCCTGCAACACAGCTATTTCAGCGAGATACCCGATATTTGAGCTACTGACCGCCC
TGCTTATCAGTACTCTCGGTTGGTATTTTGGCCCGACACTGCAGTTTGTTTACGCCACTATCCTCACCTTTGGATTGATA
GCCCTCAGCGGGATAGATTTGGATGAAATGCTACTGCCGGATCAGATTACCCTGCCGCTACTGTGGCTTGGTTTACTGGT
TAATATCTCAGGCACCTTTACTAATCTGACCGATGCCACCATAGGGGCAGCTGCCGGCTATCTAAGTCTCTGGTCTGTCT
ACTGGCTATTTAAACTGCTCACCGGCAAGGAAGGCATGGGCTATGGCGACTTCAAGCTGATGGCACTGTTTGGCGCCTGG
CTTGGCTGGCAGATGTTACCTCTAATTATTCTGCTCTCTTCTCTGGTCGGTGCCCTAGTAGGCGTTTTACTTATTCTGTT
CAAGAACCTTAATCGGGGTAACCCTATCCCCTTTGGCCCTTATATTGCTATCGCAGGTTGGGTCGCTTTGGTGTGGGGAC
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

45.196

92.434

0.418

Multiple sequence alignment