Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   M5R35_RS20205 Genome accession   NZ_CP103554
Coordinates   4290049..4290891 (-) Length   280 a.a.
NCBI ID   WP_014837743.1    Uniprot ID   -
Organism   Klebsiella michiganensis strain 5088     
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 4290049..4307567 4290049..4290891 within 0


Gene organization within MGE regions


Location: 4290049..4307567
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M5R35_RS20205 (M5R35_20205) pilD 4290049..4290891 (-) 843 WP_014837743.1 A24 family peptidase Machinery gene
  M5R35_RS20210 (M5R35_20210) - 4290953..4291693 (-) 741 WP_014228305.1 type II secretion system protein N -
  M5R35_RS20215 (M5R35_20215) gspM 4291683..4292177 (-) 495 WP_014228304.1 type II secretion system protein GspM -
  M5R35_RS20220 (M5R35_20220) gspL 4292164..4293369 (-) 1206 WP_014228303.1 type II secretion system protein GspL -
  M5R35_RS20225 (M5R35_20225) gspK 4293369..4294355 (-) 987 WP_014228302.1 type II secretion system minor pseudopilin GspK -
  M5R35_RS20230 (M5R35_20230) gspJ 4294352..4294951 (-) 600 WP_014228301.1 type II secretion system minor pseudopilin GspJ -
  M5R35_RS20235 (M5R35_20235) gspI 4294948..4295313 (-) 366 WP_014228300.1 type II secretion system minor pseudopilin GspI -
  M5R35_RS20240 (M5R35_20240) gspH 4295310..4295861 (-) 552 WP_014228299.1 type II secretion system minor pseudopilin GspH -
  M5R35_RS20245 (M5R35_20245) gspG 4295861..4296289 (-) 429 WP_014228298.1 type II secretion system major pseudopilin GspG -
  M5R35_RS20250 (M5R35_20250) gspF 4296319..4297539 (-) 1221 WP_014228297.1 type II secretion system inner membrane protein GspF -
  M5R35_RS20255 (M5R35_20255) gspE 4297544..4299049 (-) 1506 WP_014228296.1 type II secretion system ATPase GspE -
  M5R35_RS20260 (M5R35_20260) gspD 4299049..4301013 (-) 1965 WP_369816083.1 type II secretion system secretin GspD -
  M5R35_RS20265 (M5R35_20265) gspC 4301029..4301886 (-) 858 WP_071881718.1 type II secretion system protein GspC -
  M5R35_RS20270 (M5R35_20270) - 4302167..4304854 (-) 2688 WP_014228292.1 glycoside hydrolase family 32 protein -
  M5R35_RS20275 (M5R35_20275) - 4304986..4305834 (-) 849 WP_014228291.1 mannose/fructose/sorbose PTS transporter subunit IID -
  M5R35_RS20280 (M5R35_20280) - 4305846..4306646 (-) 801 WP_014228290.1 PTS mannose/fructose/sorbose transporter subunit IIC -
  M5R35_RS29740 (M5R35_20285) - 4306658..4307134 (-) 477 WP_014228289.1 PTS system mannose/fructose/N-acetylgalactosamine-transporter subunit IIB -
  M5R35_RS29745 (M5R35_20290) - 4307136..4307567 (-) 432 WP_014228288.1 mannose/fructose/sorbose PTS transporter subunit IIA -

Sequence

Protein


Download         Length: 280 a.a.        Molecular weight: 30543.63 Da        Isoelectric Point: 8.8641

>NTDB_id=723334 M5R35_RS20205 WP_014837743.1 4290049..4290891(-) (pilD) [Klebsiella michiganensis strain 5088]
MTLLVAFSSTYPIIWWFGLGATGAIVGSFLNVVICRLPVMLEKHWQREALLQLSLPSPEPTARFNLVLPHSRCPYCHTPV
AARDNIPLLSFLLLKGKARCCGAPISAQYPLVEAATAALFVLTARVFPPGLALCGAWVFVSFLLILAVIDYHRQLLPDVL
TLPLLWIGLLFNLQSYFVSLPQATIGAVAGYLCLWCLFWLFKLLTGKDALGYGDFKLLAALGAWLGWQALPHVVLLAALS
GLLFAFVQRGGAKKDLNQPLAFGPWLALAGVANMLLFQGI

Nucleotide


Download         Length: 843 bp        

>NTDB_id=723334 M5R35_RS20205 WP_014837743.1 4290049..4290891(-) (pilD) [Klebsiella michiganensis strain 5088]
ATGACATTATTAGTGGCTTTTTCATCCACGTATCCCATCATTTGGTGGTTTGGTCTTGGGGCGACAGGCGCTATCGTCGG
GAGTTTTCTGAATGTGGTGATCTGCCGCTTACCCGTAATGCTCGAGAAACACTGGCAGCGTGAGGCGTTGCTGCAGCTGT
CACTGCCTTCACCTGAACCCACGGCGCGCTTTAATCTGGTATTGCCGCACTCTCGTTGCCCATATTGTCATACTCCTGTT
GCCGCAAGGGATAATATACCTCTGCTGAGTTTCCTGTTGTTAAAGGGCAAGGCTCGCTGTTGCGGCGCGCCTATTTCCGC
GCAGTATCCGCTGGTTGAGGCGGCCACCGCTGCGCTGTTTGTCTTAACCGCACGTGTATTTCCGCCGGGGCTGGCGCTGT
GTGGCGCCTGGGTATTCGTCTCTTTTTTATTGATCCTGGCCGTTATTGATTATCACCGACAGCTGCTACCCGATGTCCTG
ACGCTGCCCTTATTGTGGATCGGCTTACTGTTTAATCTTCAGTCGTATTTTGTTTCGTTGCCGCAGGCGACGATTGGCGC
AGTGGCAGGATATCTCTGCTTGTGGTGCCTGTTCTGGCTGTTCAAGCTACTGACAGGCAAGGATGCGCTGGGCTATGGCG
ATTTTAAGCTACTGGCCGCGTTGGGAGCCTGGCTAGGCTGGCAAGCATTACCCCATGTGGTTTTACTGGCGGCGTTAAGC
GGATTGCTGTTTGCGTTCGTACAGCGAGGAGGGGCAAAAAAAGATCTCAATCAGCCGCTGGCATTCGGCCCGTGGCTGGC
GTTAGCCGGTGTGGCAAATATGCTGCTATTTCAGGGTATTTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-124)

Type IV leader peptidase family (Peptidase_A24)

(137-245)


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

48.193

88.929

0.429
  pilD Acinetobacter nosocomialis M2

43.902

87.857

0.386
  pilD Acinetobacter baumannii D1279779

43.496

87.857

0.382