Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CYCME_RS11040 Genome accession   NC_021917
Coordinates   2302976..2303851 (+) Length   291 a.a.
NCBI ID   WP_020933066.1    Uniprot ID   S5TAE5
Organism   Cycloclasticus zancles 78-ME     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2297976..2308851
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CYCME_RS11025 (CYCME_2264) - 2298940..2299713 (-) 774 WP_020933064.1 glycosyltransferase family 2 protein -
  CYCME_RS11030 (CYCME_2265) pilB 2300011..2301720 (+) 1710 WP_020933065.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CYCME_RS11035 (CYCME_2266) pilC 2301726..2302946 (+) 1221 WP_015005194.1 type II secretion system F family protein Machinery gene
  CYCME_RS11040 (CYCME_2267) pilD 2302976..2303851 (+) 876 WP_020933066.1 prepilin peptidase Machinery gene
  CYCME_RS11045 (CYCME_2268) coaE 2303858..2304463 (+) 606 WP_020933067.1 dephospho-CoA kinase -
  CYCME_RS11050 (CYCME_2269) zapD 2304504..2305271 (+) 768 WP_020933068.1 cell division protein ZapD -
  CYCME_RS11055 (CYCME_2270) yacG 2305273..2305461 (+) 189 WP_020933069.1 DNA gyrase inhibitor YacG -
  CYCME_RS11060 (CYCME_2271) - 2305472..2306407 (-) 936 WP_020933070.1 Nudix family hydrolase -
  CYCME_RS11065 (CYCME_2272) argJ 2306435..2307655 (-) 1221 WP_020161771.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32170.55 Da        Isoelectric Point: 7.0192

>NTDB_id=60900 CYCME_RS11040 WP_020933066.1 2302976..2303851(+) (pilD) [Cycloclasticus zancles 78-ME]
MSIIQALEQSPFLFYLTVCLLGLLVGSFLNVVAYRLPIMLQNAWRQECLAFLEQEDTNNPSPAAFNLSQPRSRCPSCQHP
ISALENIPVLSYLFLQGRCKNCQQAISIRYPAVELITALLSLLIAVQFGVSLQMCVALLFTWALISLTLIDLDTQLLPDS
ITLPLLWFALSISLFEIFITPKTALIGALAGYLSLWSVFWLFKLITGKEGMGYGDFKLLAAIGALLGWKMLPLVIMLSAL
AGAIIGITLIIIHGRDKNIPIPFGPYLSIAAFIALIWGEKINLTYLQFFGL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=60900 CYCME_RS11040 WP_020933066.1 2302976..2303851(+) (pilD) [Cycloclasticus zancles 78-ME]
ATGAGCATTATCCAAGCGCTTGAACAAAGCCCCTTTTTATTCTATTTAACCGTTTGCTTACTAGGGCTTCTGGTTGGTAG
CTTTCTTAATGTTGTCGCCTATCGGCTACCCATTATGTTACAAAATGCTTGGCGCCAAGAATGCCTCGCCTTTCTTGAGC
AAGAAGATACAAATAATCCTTCACCAGCGGCCTTTAATTTATCGCAACCGCGTTCACGCTGCCCTTCTTGCCAACACCCT
ATTAGCGCACTCGAAAACATTCCCGTTTTGAGCTACTTATTTCTACAAGGGCGATGTAAAAACTGCCAACAAGCTATCTC
AATTAGATACCCCGCCGTCGAGTTAATCACTGCTCTTTTGTCGCTTCTCATTGCCGTACAGTTTGGCGTGTCGTTACAAA
TGTGCGTCGCTTTATTATTTACCTGGGCATTAATTTCCCTAACATTGATAGACCTTGACACTCAACTATTGCCCGACTCT
ATCACCCTTCCACTTTTATGGTTTGCCTTATCCATCAGCCTATTTGAAATTTTCATAACACCTAAAACCGCACTCATCGG
CGCACTTGCCGGTTACCTTAGCCTTTGGTCAGTTTTTTGGTTATTTAAATTAATCACCGGTAAAGAAGGGATGGGCTACG
GTGACTTTAAGCTACTTGCCGCTATTGGCGCTTTATTGGGCTGGAAAATGTTACCTCTGGTCATTATGTTATCTGCTTTA
GCTGGTGCAATCATTGGAATAACACTCATCATTATTCACGGACGAGATAAGAACATACCCATACCATTTGGCCCCTATTT
ATCTATTGCCGCGTTTATTGCGTTGATCTGGGGCGAAAAAATTAACCTAACTTACCTCCAGTTTTTCGGCTTATAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(139-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-128)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB S5TAE5

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 Acinetobacter baumannii D1279779

51.228

97.938

0.502
  pilD Acinetobacter nosocomialis M2

50.877

97.938

0.498
  pilD Vibrio cholerae strain A1552

50.735

93.471

0.474
  pilD Vibrio campbellii strain DS40M4

48.387

95.876

0.464
  pilD Neisseria gonorrhoeae MS11

48.106

90.722

0.436

Multiple sequence alignment