Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KDD30_RS13520 Genome accession   NZ_CP073578
Coordinates   2926952..2927836 (+) Length   294 a.a.
NCBI ID   WP_211646313.1    Uniprot ID   -
Organism   Photobacterium sp. GJ3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2921952..2932836
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KDD30_RS24810 (KDD30_13505) - 2923476..2923967 (+) 492 WP_211646310.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  KDD30_RS13510 (KDD30_13510) - 2923971..2925662 (+) 1692 WP_211646311.1 GspE/PulE family protein -
  KDD30_RS13515 (KDD30_13515) - 2925662..2926879 (+) 1218 WP_211646312.1 type II secretion system F family protein -
  KDD30_RS13520 (KDD30_13520) pilD 2926952..2927836 (+) 885 WP_211646313.1 A24 family peptidase Machinery gene
  KDD30_RS13525 (KDD30_13525) coaE 2927833..2928444 (+) 612 WP_211646314.1 dephospho-CoA kinase -
  KDD30_RS13530 (KDD30_13530) zapD 2928483..2929235 (+) 753 WP_211646315.1 cell division protein ZapD -
  KDD30_RS13535 (KDD30_13535) yacG 2929240..2929443 (+) 204 WP_211649975.1 DNA gyrase inhibitor YacG -
  KDD30_RS13540 (KDD30_13540) mutT 2929525..2929923 (-) 399 WP_211646316.1 8-oxo-dGTP diphosphatase MutT -
  KDD30_RS13545 (KDD30_13545) secA 2930039..2932756 (-) 2718 WP_211646317.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 294 a.a.        Molecular weight: 32350.48 Da        Isoelectric Point: 6.8772

>NTDB_id=559325 KDD30_RS13520 WP_211646313.1 2926952..2927836(+) (pilD) [Photobacterium sp. GJ3]
MALLIDYPWLYPLAAAIFGLIIGSFLNVVIHRLPMMMERQWRADCADCFPEHGPVPPQQPLNLSVPASHCPHCQHPIRAW
ENIPVLSWILLRGKCSHCQQKISARYPAIELLSSLAALTVALVLPFSAWSLAVIAASFALIALTFIDIDKMLLPDQLTLP
LMWGGLLLSLLEISPVSLESALIGAMAGYLCLWSLYWAFKLLTGKEGMGYGDFKLLAALGAWAGWQLLPFIVLLSSLLGA
LCGIILLRLQHNESNASQTPFSFGPYLALAGWLALLWGTPVLHWYVGSYLGYAQ

Nucleotide


Download         Length: 885 bp        

>NTDB_id=559325 KDD30_RS13520 WP_211646313.1 2926952..2927836(+) (pilD) [Photobacterium sp. GJ3]
ATGGCATTGCTGATCGATTATCCCTGGCTTTACCCGCTTGCTGCAGCCATTTTTGGCCTGATCATCGGCAGCTTTCTGAA
TGTGGTCATTCACCGCCTGCCCATGATGATGGAAAGGCAGTGGCGGGCAGATTGTGCCGACTGCTTTCCCGAGCATGGTC
CGGTGCCGCCACAACAACCCCTGAATTTAAGTGTTCCGGCCTCACACTGCCCCCATTGCCAGCACCCAATCCGAGCCTGG
GAAAACATTCCGGTGCTCAGCTGGATACTGCTGCGCGGCAAATGTAGTCACTGTCAGCAAAAGATCAGCGCCCGCTACCC
TGCCATCGAGCTCCTCAGCAGCCTGGCCGCACTGACGGTTGCACTGGTACTTCCTTTTTCGGCATGGAGTCTGGCAGTGA
TCGCCGCCAGCTTCGCACTCATTGCCCTGACTTTTATCGATATTGATAAAATGCTGTTGCCAGATCAGCTCACGCTCCCA
CTGATGTGGGGCGGGTTGCTGCTGTCGCTGCTGGAAATCAGCCCGGTCAGTTTAGAGTCCGCGCTCATTGGTGCCATGGC
GGGTTATCTGTGTTTATGGAGTCTGTACTGGGCCTTTAAACTCCTGACCGGAAAAGAAGGCATGGGCTATGGCGACTTCA
AACTCTTAGCTGCGCTGGGAGCCTGGGCTGGCTGGCAATTGCTGCCTTTCATTGTGCTGCTGTCTTCCCTGCTTGGCGCC
CTGTGTGGCATCATTTTACTGCGTCTGCAACACAATGAATCCAACGCGTCACAGACGCCGTTTTCTTTTGGCCCATATCT
CGCGCTGGCTGGCTGGCTGGCCTTATTGTGGGGCACACCGGTCCTGCACTGGTATGTAGGCAGCTATTTAGGATATGCAC
AATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


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

62.887

98.98

0.622
  pilD Vibrio campbellii strain DS40M4

60.137

98.98

0.595
  pilD Acinetobacter baumannii D1279779

53.623

93.878

0.503
  pilD Acinetobacter nosocomialis M2

53.261

93.878

0.5
  pilD Neisseria gonorrhoeae MS11

48.148

91.837

0.442