Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   L3249_RS20725 Genome accession   NZ_CP091470
Coordinates   4378814..4379656 (-) Length   280 a.a.
NCBI ID   WP_195377693.1    Uniprot ID   -
Organism   Klebsiella michiganensis strain KO_408     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 4379718..4396333 4378814..4379656 flank 62


Gene organization within MGE regions


Location: 4378814..4396333
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L3249_RS20725 (L3249_20750) pilD 4378814..4379656 (-) 843 WP_195377693.1 A24 family peptidase Machinery gene
  L3249_RS20730 (L3249_20755) - 4379718..4380458 (-) 741 WP_195377692.1 type II secretion system protein N -
  L3249_RS20735 (L3249_20760) - 4380448..4380942 (-) 495 WP_014228304.1 type II secretion system protein M -
  L3249_RS20740 (L3249_20765) gspL 4380929..4382134 (-) 1206 WP_195377691.1 type II secretion system protein GspL -
  L3249_RS20745 (L3249_20770) gspK 4382134..4383120 (-) 987 WP_042944535.1 type II secretion system minor pseudopilin GspK -
  L3249_RS20750 (L3249_20775) gspJ 4383117..4383716 (-) 600 WP_014228301.1 type II secretion system minor pseudopilin GspJ -
  L3249_RS20755 (L3249_20780) gspI 4383713..4384078 (-) 366 WP_195377690.1 type II secretion system minor pseudopilin GspI -
  L3249_RS20760 (L3249_20785) gspH 4384075..4384626 (-) 552 WP_014228299.1 type II secretion system minor pseudopilin GspH -
  L3249_RS20765 (L3249_20790) gspG 4384626..4385054 (-) 429 WP_042944533.1 type II secretion system major pseudopilin GspG -
  L3249_RS20770 (L3249_20795) gspF 4385084..4386304 (-) 1221 WP_195377689.1 type II secretion system inner membrane protein GspF -
  L3249_RS20775 (L3249_20800) gspE 4386309..4387814 (-) 1506 WP_042944529.1 type II secretion system ATPase GspE -
  L3249_RS20780 (L3249_20805) gspD 4387814..4389760 (-) 1947 WP_238076251.1 type II secretion system secretin GspD -
  L3249_RS20785 (L3249_20810) gspC 4389794..4390651 (-) 858 WP_195377687.1 type II secretion system protein GspC -
  L3249_RS30925 - 4390933..4393620 (-) 2688 WP_195377686.1 glycoside hydrolase family 32 protein -
  L3249_RS20800 (L3249_20825) - 4393752..4394600 (-) 849 WP_014228291.1 mannose/fructose/sorbose PTS transporter subunit IID -
  L3249_RS20805 (L3249_20830) - 4394612..4395412 (-) 801 WP_014228290.1 PTS mannose/fructose/sorbose transporter subunit IIC -
  L3249_RS30930 - 4395424..4396333 (-) 910 Protein_4097 mannose/fructose/sorbose PTS transporter subunit IIB -

Sequence

Protein


Download         Length: 280 a.a.        Molecular weight: 30455.54 Da        Isoelectric Point: 8.5766

>NTDB_id=651554 L3249_RS20725 WP_195377693.1 4378814..4379656(-) (pilD) [Klebsiella michiganensis strain KO_408]
MTLLVAFSSTYPIIWWFGLGATGAIVGSFLNVVICRLPVMLEKHWQREALLQLSLPSPEPTARFNLVLPHSRCPYCHTPV
AARDNIPLLSFLLLKGKARCCGAPISAQYPLVEAATAALFVLTARVFPPGLALCGAWVFVSFLLILAVIDYHQQLLPDVL
TLPLLWIGLLFNLQSCFVSLPQATIGAVAGYLCLWCLFWLFKLLTGKDALGYGDFKLLAALGAWLGWQALPHVVLLAAIS
GLLFAFVQRGGAKKDLNQPLAFGPWLALAGVANMLLFQGI

Nucleotide


Download         Length: 843 bp        

>NTDB_id=651554 L3249_RS20725 WP_195377693.1 4378814..4379656(-) (pilD) [Klebsiella michiganensis strain KO_408]
ATGACATTATTAGTGGCTTTTTCATCCACGTATCCCATCATTTGGTGGTTTGGTCTTGGGGCGACAGGCGCTATCGTCGG
GAGTTTTCTGAATGTGGTGATCTGCCGCTTACCCGTAATGCTCGAGAAACACTGGCAGCGTGAGGCGTTGCTGCAGCTGT
CACTGCCTTCACCTGAACCCACGGCGCGCTTTAATCTGGTATTGCCGCACTCTCGTTGCCCATATTGTCATACTCCTGTT
GCCGCAAGGGATAATATACCTCTGCTGAGTTTCCTGTTGTTAAAAGGCAAGGCTCGCTGTTGCGGCGCGCCTATTTCCGC
GCAGTATCCGCTGGTTGAGGCGGCCACCGCCGCGCTGTTTGTCTTAACCGCGCGTGTATTTCCGCCGGGGCTGGCGCTGT
GTGGCGCCTGGGTATTCGTCTCTTTTTTATTGATCCTGGCCGTTATTGATTATCACCAACAGCTGCTACCCGATGTCCTG
ACGCTGCCCTTATTGTGGATCGGCTTACTGTTTAATCTTCAGTCGTGTTTTGTTTCGTTGCCGCAGGCGACGATTGGCGC
AGTGGCAGGATATCTCTGCTTGTGGTGCCTGTTCTGGCTGTTCAAGCTACTGACAGGCAAGGATGCGCTGGGCTATGGCG
ATTTTAAGCTACTGGCCGCGCTGGGGGCCTGGCTAGGCTGGCAAGCATTACCCCATGTGGTTTTACTGGCGGCGATAAGC
GGATTGCTGTTTGCGTTCGTACAGCGAGGAGGGGCAAAAAAAGATCTCAATCAGCCGCTGGCATTCGGCCCGTGGCTGGC
GTTAGCCGGTGTGGCAAATATGCTGCTATTTCAGGGTATTTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-124)


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

52.06

95.357

0.496
  pilD Vibrio campbellii strain DS40M4

49.077

96.786

0.475
  pilD Neisseria gonorrhoeae MS11

47.791

88.929

0.425
  pilD Acinetobacter nosocomialis M2

43.496

87.857

0.382
  pilD Acinetobacter baumannii D1279779

43.089

87.857

0.379