Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   K5621_RS02015 Genome accession   NZ_AP024618
Coordinates   426113..427027 (-) Length   304 a.a.
NCBI ID   WP_100142961.1    Uniprot ID   -
Organism   Shewanella carassii strain TUM17387     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 421113..432027
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5621_RS19975 - 423781..424029 (-) 249 Protein_367 transposase -
  K5621_RS01995 (TUM17387_03730) mutT 424109..424504 (-) 396 WP_188726048.1 8-oxo-dGTP diphosphatase MutT -
  K5621_RS02000 (TUM17387_03740) yacG 424507..424719 (-) 213 WP_100142958.1 DNA gyrase inhibitor YacG -
  K5621_RS02005 (TUM17387_03750) zapD 424764..425504 (-) 741 WP_100142959.1 cell division protein ZapD -
  K5621_RS02010 (TUM17387_03760) coaE 425501..426112 (-) 612 WP_100142960.1 dephospho-CoA kinase -
  K5621_RS02015 (TUM17387_03770) pilD 426113..427027 (-) 915 WP_100142961.1 A24 family peptidase Machinery gene
  K5621_RS02020 (TUM17387_03780) pilC 427108..428376 (-) 1269 WP_221050286.1 type II secretion system F family protein Machinery gene
  K5621_RS02025 (TUM17387_03790) pilB 428462..430168 (-) 1707 WP_221050287.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K5621_RS02030 (TUM17387_03800) - 430177..430629 (-) 453 WP_221050288.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 34008.44 Da        Isoelectric Point: 7.3007

>NTDB_id=86669 K5621_RS02015 WP_100142961.1 426113..427027(-) (pilD) [Shewanella carassii strain TUM17387]
MSEFIAILSHNHWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLHEYQADFVKQIGETKLNAPIDNYPPKY
NLLLPKSACPKCGTHIKPWHNLPIIGYLLLGGKCASCKTNISARYPLFELLTALLICTLGWYFGPTLQFVYATILTFGLI
ALSGIDLDEMLLPDQITLPLLWFGLLINLSGTFTSITDATIGAAAGYLSLWSIYWLFKLVTGKEGMGYGDFKLLALFGAW
LGWQMLPLIILLSSLVGALVGVLLILFKDLNRGNPIPFGPYIAVAGWVALVWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=86669 K5621_RS02015 WP_100142961.1 426113..427027(-) (pilD) [Shewanella carassii strain TUM17387]
ATGTCAGAATTTATTGCCATACTGAGCCACAATCATTGGCTCTTTCTTGTTCTCTGTTTTCTGTTTGCCTCAGTAATAGG
CAGTTTTCTCAATGTGGTGATCCATCGTCTGCCGGTAATGATGAAGCGTGAATGGCAGCAGGAATGCAATCAGTACCTGC
ATGAATATCAAGCCGACTTTGTCAAACAGATAGGTGAAACAAAGTTAAATGCTCCAATAGATAATTATCCCCCCAAATAT
AATCTATTGTTGCCAAAGTCTGCCTGCCCCAAGTGCGGAACCCATATCAAACCCTGGCACAACCTCCCCATAATCGGCTA
CCTGTTGCTTGGCGGCAAATGTGCCTCCTGTAAGACGAATATTTCCGCCAGATATCCCCTATTCGAGTTGCTGACGGCCT
TACTCATTTGTACTCTGGGTTGGTACTTTGGCCCGACCCTGCAATTTGTTTATGCCACTATTCTCACTTTTGGGTTGATA
GCTCTCAGCGGCATAGATCTGGATGAGATGCTATTGCCCGACCAGATAACCCTGCCGCTGTTGTGGTTTGGTTTACTGAT
CAATCTCTCCGGCACTTTTACCAGTATTACCGATGCCACCATAGGTGCCGCAGCCGGTTATTTGAGCCTCTGGTCTATCT
ACTGGCTGTTTAAATTAGTCACCGGCAAGGAAGGCATGGGTTATGGCGACTTCAAGCTGTTGGCACTGTTTGGCGCCTGG
CTCGGATGGCAAATGCTACCTCTGATTATCCTGCTATCTTCATTGGTCGGCGCCTTGGTGGGCGTGTTGCTCATACTGTT
CAAGGATCTCAATCGGGGGAATCCCATCCCCTTTGGCCCCTATATTGCCGTAGCTGGTTGGGTTGCCTTGGTGTGGGGAC
AACAGATTGTTGATTGGTATTTGGGGACGCTTTAA

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 cholerae strain A1552

52.041

96.711

0.503
  pilD Vibrio campbellii strain DS40M4

49.505

99.671

0.493
  pilD Acinetobacter nosocomialis M2

48.675

99.342

0.484
  pilD Acinetobacter baumannii D1279779

48.344

99.342

0.48
  pilD Neisseria gonorrhoeae MS11

44.128

92.434

0.408

Multiple sequence alignment