Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RKE25_RS17985 Genome accession   NZ_CP134867
Coordinates   4073683..4074543 (+) Length   286 a.a.
NCBI ID   WP_311839460.1    Uniprot ID   A0AA96IWT8
Organism   Dyella sp. BiH032     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4068683..4079543
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RKE25_RS17970 (RKE25_17970) - 4069365..4070243 (-) 879 WP_311839457.1 glycosyltransferase family 2 protein -
  RKE25_RS17975 (RKE25_17975) pilB 4070481..4072202 (+) 1722 WP_311839458.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RKE25_RS17980 (RKE25_17980) pilC 4072343..4073608 (+) 1266 WP_311839459.1 type II secretion system F family protein Machinery gene
  RKE25_RS17985 (RKE25_17985) pilD 4073683..4074543 (+) 861 WP_311839460.1 A24 family peptidase Machinery gene
  RKE25_RS17990 (RKE25_17990) coaE 4074540..4075160 (+) 621 WP_311839461.1 dephospho-CoA kinase -
  RKE25_RS17995 (RKE25_17995) - 4075169..4076113 (-) 945 WP_311839462.1 Nudix family hydrolase -
  RKE25_RS18000 (RKE25_18000) - 4076134..4076622 (-) 489 WP_311839463.1 dihydrofolate reductase -
  RKE25_RS18005 (RKE25_18005) - 4076746..4077540 (-) 795 WP_311839464.1 thymidylate synthase -
  RKE25_RS18010 (RKE25_18010) lgt 4077545..4078375 (-) 831 WP_311839465.1 prolipoprotein diacylglyceryl transferase -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31480.68 Da        Isoelectric Point: 8.3336

>NTDB_id=884212 RKE25_RS17985 WP_311839460.1 4073683..4074543(+) (pilD) [Dyella sp. BiH032]
MPELPLWAWIATAAVLGLLVGSFLNVVILRLPERMTAMWRQEARDVLELEAEDATPLPPGIVREPSHCPHCKHRLSALDN
IPLFGWLFLGGRCRYCRAAISIQYPLVELLSGVLSALVVWKFGPTWPALAGLAFTWMLIALAGIDFRTQYLPDQINYPLL
WLGLLLSVLPMFVNPVAAIVGAAVGYLSLWSVYWLFKLATGKEGMGYGDFKLLAALGAWMGPGKLLPIVLLSSLVGALIG
GALIALRKHQRELPMPFGPFIAMAGWICFMAGDWLLDTYARLTGLR

Nucleotide


Download         Length: 861 bp        

>NTDB_id=884212 RKE25_RS17985 WP_311839460.1 4073683..4074543(+) (pilD) [Dyella sp. BiH032]
ATGCCTGAGCTTCCCCTCTGGGCCTGGATCGCCACGGCAGCCGTGCTCGGCCTGCTCGTCGGCAGCTTCCTGAACGTAGT
GATCCTGCGCCTGCCCGAACGCATGACGGCGATGTGGCGCCAGGAGGCGCGCGACGTCCTGGAACTTGAAGCCGAAGATG
CGACGCCCCTGCCCCCGGGCATCGTGCGTGAGCCTTCGCATTGTCCCCATTGCAAGCACCGGCTTTCGGCGCTGGACAAT
ATCCCGCTGTTCGGCTGGCTGTTCCTGGGCGGGCGCTGCCGTTACTGCCGTGCGGCGATCTCCATCCAGTATCCCCTGGT
GGAGTTGCTCAGCGGCGTGCTGAGCGCGCTGGTGGTATGGAAGTTCGGCCCGACCTGGCCGGCACTCGCGGGCCTGGCCT
TCACCTGGATGCTGATCGCGCTGGCCGGCATCGACTTCCGCACGCAATACCTGCCGGACCAGATCAACTACCCGCTGCTG
TGGCTAGGACTGCTGCTCAGCGTGCTGCCGATGTTCGTGAACCCCGTGGCAGCCATCGTCGGCGCCGCGGTGGGCTATCT
GAGCCTCTGGAGCGTGTACTGGCTGTTCAAGCTGGCCACCGGCAAGGAAGGCATGGGTTATGGCGACTTCAAGCTGCTCG
CCGCCCTGGGAGCCTGGATGGGGCCGGGCAAGCTGTTGCCGATCGTGCTGCTGTCATCGCTGGTCGGTGCGCTGATCGGC
GGCGCGCTGATCGCCTTGCGCAAGCATCAGCGCGAACTGCCGATGCCGTTCGGTCCCTTCATCGCGATGGCCGGCTGGAT
CTGCTTCATGGCCGGTGACTGGCTGCTGGATACCTACGCGCGGCTCACGGGCCTGCGATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(15-122)

Type IV leader peptidase family (Peptidase_A24)

(133-240)


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

49.466

98.252

0.486
  pilD Acinetobacter nosocomialis M2

49.813

93.357

0.465
  pilD Acinetobacter baumannii D1279779

49.438

93.357

0.462
  pilD Vibrio campbellii strain DS40M4

45.848

96.853

0.444
  pilD Neisseria gonorrhoeae MS11

46.36

91.259

0.423