Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KHX94_RS07315 Genome accession   NZ_CP074572
Coordinates   1542777..1543691 (+) Length   304 a.a.
NCBI ID   WP_213682924.1    Uniprot ID   -
Organism   Shewanella dokdonensis strain DSM 23626     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1537777..1548691
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KHX94_RS07300 (KHX94_07295) - 1539204..1539641 (+) 438 WP_213682921.1 pilin -
  KHX94_RS07305 (KHX94_07300) pilB 1539653..1541359 (+) 1707 WP_213682922.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KHX94_RS07310 (KHX94_07305) pilC 1541427..1542695 (+) 1269 WP_213682923.1 type II secretion system F family protein Machinery gene
  KHX94_RS07315 (KHX94_07310) pilD 1542777..1543691 (+) 915 WP_213682924.1 A24 family peptidase Machinery gene
  KHX94_RS07320 (KHX94_07315) coaE 1543745..1544299 (+) 555 WP_244859373.1 dephospho-CoA kinase -
  KHX94_RS07325 (KHX94_07320) zapD 1544304..1545038 (+) 735 WP_213682925.1 cell division protein ZapD -
  KHX94_RS07330 (KHX94_07325) yacG 1545083..1545304 (+) 222 WP_213682926.1 DNA gyrase inhibitor YacG -
  KHX94_RS07335 (KHX94_07330) mutT 1545310..1545711 (+) 402 WP_213682927.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33874.51 Da        Isoelectric Point: 8.0176

>NTDB_id=565352 KHX94_RS07315 WP_213682924.1 1542777..1543691(+) (pilD) [Shewanella dokdonensis strain DSM 23626]
MSDFLTIMSQHPWLFTSLAFVFAAVIGSFINVVIYRLPVMLKREWQQECESYLEEYQPAAFKLLTDKQLLQPIDKLPARF
NLIVPGSACPKCHSAIKPWHNLPIIGWLLLRGKCAACQQPISGRYPLFELLAALLVATLAWNFGPTWQFALSALLTFALI
ALAGIDIDEMLLPDQLTLPFLWLGLAANGFGLFVPLTDALIGAIAGYLSLWSVFWLFKLLTGKEGMGYGDFKLLALFGAW
LGWQMLPLIILLSSLLGAVIGLSLLLFKGMQRNNPIPFGPYIVIAGWVALLWGQSIVSWYLRSL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=565352 KHX94_RS07315 WP_213682924.1 1542777..1543691(+) (pilD) [Shewanella dokdonensis strain DSM 23626]
ATGTCTGATTTTCTTACCATAATGAGCCAGCATCCCTGGCTGTTTACTAGTTTGGCGTTTGTGTTTGCTGCCGTTATTGG
CAGTTTTATCAATGTGGTGATCTACCGTTTACCGGTAATGCTAAAACGAGAGTGGCAGCAAGAATGCGAAAGCTACCTTG
AAGAATATCAACCGGCGGCATTTAAGTTACTCACCGATAAACAGCTATTGCAGCCGATAGATAAATTACCCGCCAGATTC
AACCTGATTGTTCCAGGCTCTGCCTGCCCGAAATGCCATAGTGCCATCAAACCCTGGCATAACCTGCCTATTATTGGCTG
GCTGCTACTAAGAGGTAAATGCGCGGCTTGCCAACAGCCAATTTCCGGACGTTATCCATTATTTGAATTGCTGGCGGCGC
TACTGGTTGCTACGCTGGCGTGGAACTTTGGCCCCACCTGGCAATTCGCCTTATCGGCCCTACTCACATTTGCCTTGATA
GCGTTAGCGGGCATCGATATTGATGAAATGCTGCTGCCAGATCAGCTCACCTTACCTTTCTTATGGCTGGGCTTAGCCGC
CAATGGCTTTGGCCTGTTTGTGCCGCTAACCGATGCGCTCATAGGTGCAATTGCCGGATATCTCAGTCTTTGGTCAGTAT
TCTGGCTATTTAAACTGCTGACAGGCAAAGAAGGTATGGGCTATGGTGATTTTAAGCTGTTGGCATTGTTTGGTGCCTGG
CTTGGCTGGCAAATGCTACCGCTGATCATCTTATTGTCATCGCTGCTAGGTGCAGTGATAGGCCTATCCTTACTGTTATT
TAAAGGCATGCAGCGCAATAACCCCATCCCCTTTGGGCCCTATATTGTGATAGCGGGCTGGGTCGCGTTACTCTGGGGAC
AATCCATTGTCTCTTGGTATCTGCGGAGTTTATAA

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

49.834

99.013

0.493
  pilD Vibrio cholerae strain A1552

50.847

97.039

0.493
  pilD Acinetobacter nosocomialis M2

49.007

99.342

0.487
  pilD Acinetobacter baumannii D1279779

49.007

99.342

0.487
  pilD Neisseria gonorrhoeae MS11

45.296

94.408

0.428