Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RDV50_RS07385 Genome accession   NZ_CP133462
Coordinates   1504703..1505590 (-) Length   295 a.a.
NCBI ID   WP_137041173.1    Uniprot ID   -
Organism   Neisseria subflava strain LMG 5313     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1499703..1510590
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV50_RS07355 (RDV50_07355) ftsZ 1499965..1501164 (+) 1200 WP_049351718.1 cell division protein FtsZ -
  RDV50_RS07360 (RDV50_07360) ispH 1501286..1502254 (-) 969 WP_137041175.1 4-hydroxy-3-methylbut-2-enyl diphosphate reductase -
  RDV50_RS07365 (RDV50_07365) lspA 1502268..1502774 (-) 507 WP_070633008.1 signal peptidase II -
  RDV50_RS07370 (RDV50_07370) glyQ 1502923..1503822 (-) 900 WP_003685919.1 glycine--tRNA ligase subunit alpha -
  RDV50_RS07375 (RDV50_07375) yacG 1503904..1504086 (-) 183 WP_003682475.1 DNA gyrase inhibitor YacG -
  RDV50_RS07380 (RDV50_07380) coaE 1504083..1504703 (-) 621 WP_137041174.1 dephospho-CoA kinase -
  RDV50_RS07385 (RDV50_07385) pilD 1504703..1505590 (-) 888 WP_137041173.1 A24 family peptidase Machinery gene
  RDV50_RS07390 (RDV50_07390) pilG 1505592..1506833 (-) 1242 WP_137041172.1 type II secretion system F family protein Machinery gene
  RDV50_RS07395 (RDV50_07395) pilF 1506913..1508592 (-) 1680 WP_003685901.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 295 a.a.        Molecular weight: 32172.44 Da        Isoelectric Point: 8.3591

>NTDB_id=874394 RDV50_RS07385 WP_137041173.1 1504703..1505590(-) (pilD) [Neisseria subflava strain LMG 5313]
MLDSIYSAIDALSVLAPFAIPLAVILGLLIGSFLNVVIYRTPIMMEREWTQFSKEHLGIKLTDEEKQPFNLCKPNSRCPK
CKNPVKPWQNIPILSYVLLGGKCHSCKTAIGIRYPLIELLTSVLFGIVAWQYGWSCTTIGGLILTAILIALTFIDADTQY
LPDSLTQPLIWIGLLFNLNDTFVPLHSAVLGAIAGYMSLYTLCAVYKLLTGKIGMGNGDFKLLAALGAWLGVDILPVLIF
MAALVGLVGALIARVGKGQYFAFGPSLAVAGWIILVANAPITQLVQWWLVQSGFR

Nucleotide


Download         Length: 888 bp        

>NTDB_id=874394 RDV50_RS07385 WP_137041173.1 1504703..1505590(-) (pilD) [Neisseria subflava strain LMG 5313]
ATGCTTGATAGTATTTACTCTGCCATCGACGCCCTCTCCGTTCTTGCGCCATTCGCCATTCCTTTAGCCGTTATTTTAGG
ATTGCTGATTGGCAGCTTTCTAAACGTTGTCATTTATCGCACGCCGATAATGATGGAACGCGAATGGACACAATTTTCTA
AAGAGCATTTGGGCATCAAGCTGACAGATGAAGAAAAACAGCCATTTAATCTGTGCAAACCGAATTCACGCTGCCCAAAA
TGCAAAAACCCAGTCAAACCTTGGCAAAACATCCCCATCCTCAGCTATGTTTTACTGGGCGGGAAATGCCACTCCTGCAA
AACCGCTATCGGCATACGCTATCCGCTGATTGAGCTGCTGACAAGTGTCTTATTCGGTATTGTCGCGTGGCAATACGGCT
GGTCATGTACAACTATTGGCGGATTAATTTTGACTGCCATATTGATTGCGCTGACCTTTATTGATGCCGATACACAATAT
TTACCCGACAGCCTGACTCAGCCCCTAATCTGGATCGGCCTGCTGTTTAATCTGAATGACACATTCGTACCCCTGCATTC
AGCCGTTTTAGGCGCAATCGCAGGCTATATGAGCCTTTATACTTTATGCGCCGTCTATAAACTTCTGACCGGTAAAATCG
GCATGGGCAATGGCGACTTCAAACTTTTGGCCGCGCTCGGGGCATGGCTGGGCGTAGATATCTTGCCTGTTCTGATCTTC
ATGGCTGCCTTAGTCGGACTGGTGGGCGCACTCATTGCCCGCGTCGGTAAAGGTCAATATTTTGCTTTTGGTCCCAGCCT
TGCTGTAGCAGGATGGATTATTTTGGTTGCCAATGCACCTATTACCCAACTGGTACAATGGTGGCTCGTACAATCAGGAT
TCCGATAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(142-249)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-132)


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 Neisseria gonorrhoeae MS11

70.318

95.932

0.675
  pilD Vibrio cholerae strain A1552

46.816

90.508

0.424
  pilD Vibrio campbellii strain DS40M4

45.055

92.542

0.417
  pilD Acinetobacter baumannii D1279779

45.418

85.085

0.386
  pilD Acinetobacter nosocomialis M2

45.418

85.085

0.386