Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GO485_RS21175 Genome accession   NZ_CP046904
Coordinates   4911866..4912735 (-) Length   289 a.a.
NCBI ID   WP_145872707.1    Uniprot ID   A0A562Q513
Organism   Pseudoduganella flava strain DSM 26639     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4906866..4917735
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GO485_RS21145 (GO485_21100) - 4907295..4907960 (+) 666 WP_145872701.1 response regulator transcription factor -
  GO485_RS21150 (GO485_21105) - 4907957..4909345 (+) 1389 WP_145872702.1 HAMP domain-containing sensor histidine kinase -
  GO485_RS21155 (GO485_21110) - 4909431..4910162 (+) 732 WP_145872703.1 VacJ family lipoprotein -
  GO485_RS21160 (GO485_21115) yacG 4910214..4910393 (-) 180 WP_145872704.1 DNA gyrase inhibitor YacG -
  GO485_RS21165 (GO485_21120) zapD 4910415..4911170 (-) 756 WP_145872705.1 cell division protein ZapD -
  GO485_RS21170 (GO485_21125) coaE 4911244..4911864 (-) 621 WP_145872706.1 dephospho-CoA kinase -
  GO485_RS21175 (GO485_21130) pilD 4911866..4912735 (-) 870 WP_145872707.1 A24 family peptidase Machinery gene
  GO485_RS21180 (GO485_21135) - 4912870..4913928 (+) 1059 WP_229418554.1 LacI family DNA-binding transcriptional regulator -
  GO485_RS21185 (GO485_21140) - 4914156..4916441 (+) 2286 WP_145872708.1 TonB-dependent siderophore receptor -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31029.87 Da        Isoelectric Point: 8.0165

>NTDB_id=409262 GO485_RS21175 WP_145872707.1 4911866..4912735(-) (pilD) [Pseudoduganella flava strain DSM 26639]
MPQELFLFSPPATLAAAIVAGIFGLLIGSFLNVVIYRIPKMMQRESDNYVASESGQPLPHTDKFNLMVPRSRCGHCGHQI
TALENIPVLSWLVLRGKCSACKAPISARYPIIEACTGVLSAALVWQFGSGWTGLATLLFAYLLIAMTFIDADTQLLPDDL
TYPLLWAGLLVNLNGTFVPLRDAVIGAAAGYLVLWSIYWAFKLLTGKEGMGYGDFKLLAALGAWLGWMMLPTIILLSSVV
GAVVGIALIVFAKRGRNNPIPFGPYLAAAGLIALLFGEPIAAFTQALLG

Nucleotide


Download         Length: 870 bp        

>NTDB_id=409262 GO485_RS21175 WP_145872707.1 4911866..4912735(-) (pilD) [Pseudoduganella flava strain DSM 26639]
ATGCCCCAGGAACTCTTCCTCTTCTCCCCGCCCGCCACCCTGGCCGCCGCGATCGTCGCCGGCATCTTCGGCCTGTTGAT
CGGCAGCTTCCTGAACGTCGTCATCTACCGGATCCCGAAGATGATGCAGCGCGAGTCGGACAATTACGTGGCCAGCGAGT
CGGGCCAGCCGCTGCCCCACACGGACAAGTTCAACCTGATGGTGCCGCGCTCGCGCTGCGGCCATTGCGGCCACCAGATC
ACGGCGCTGGAAAACATTCCCGTGCTCAGCTGGCTGGTCCTGCGCGGCAAGTGCAGCGCATGCAAGGCGCCGATCTCCGC
GCGCTACCCGATCATCGAAGCGTGCACCGGCGTGCTCTCCGCCGCCCTCGTGTGGCAGTTCGGCAGCGGCTGGACGGGCC
TGGCCACGCTGCTGTTCGCCTACCTGCTGATCGCGATGACGTTCATCGATGCCGACACCCAGCTGCTGCCGGACGACCTG
ACCTACCCGCTGCTGTGGGCGGGCCTGCTGGTGAACCTGAACGGCACCTTCGTGCCACTGCGCGATGCCGTCATCGGCGC
GGCCGCCGGCTACCTGGTGCTGTGGTCGATCTACTGGGCCTTCAAGCTGCTGACGGGGAAGGAAGGCATGGGCTACGGCG
ACTTCAAGCTGCTGGCGGCGCTGGGCGCGTGGCTGGGCTGGATGATGCTGCCGACGATCATCCTGCTGTCCTCCGTCGTG
GGTGCCGTCGTCGGCATCGCGCTGATCGTGTTCGCGAAACGGGGCCGCAACAACCCGATCCCGTTCGGCCCCTACCTGGC
CGCCGCGGGGCTGATCGCGCTGCTGTTCGGCGAGCCGATCGCCGCGTTCACGCAGGCGCTGCTGGGCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-246)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-127)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A562Q513

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

57.143

96.886

0.554
  pilD Vibrio campbellii strain DS40M4

55.431

92.388

0.512
  pilD Acinetobacter baumannii D1279779

47.5

96.886

0.46
  pilD Neisseria gonorrhoeae MS11

51.562

88.581

0.457
  pilD Acinetobacter nosocomialis M2

48.881

92.734

0.453

Multiple sequence alignment