Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   THSYN_RS28135 Genome accession   NZ_CP020370
Coordinates   6572329..6573201 (+) Length   290 a.a.
NCBI ID   WP_100922043.1    Uniprot ID   -
Organism   Candidatus Thiodictyon syntrophicum strain Cad16T     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 6567329..6578201
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  THSYN_RS28120 (THSYN_27910) - 6568080..6568913 (+) 834 WP_100922040.1 NYN domain-containing protein -
  THSYN_RS28125 (THSYN_27915) pilB 6569100..6570812 (+) 1713 WP_100922041.1 type IV-A pilus assembly ATPase PilB Machinery gene
  THSYN_RS28130 (THSYN_27920) pilC 6570818..6572077 (+) 1260 WP_100922042.1 type II secretion system F family protein Machinery gene
  THSYN_RS28135 (THSYN_27925) pilD 6572329..6573201 (+) 873 WP_100922043.1 prepilin peptidase Machinery gene
  THSYN_RS28140 (THSYN_27930) coaE 6573217..6573813 (+) 597 WP_100922044.1 dephospho-CoA kinase -
  THSYN_RS28145 (THSYN_27935) ilvB 6574099..6575844 (+) 1746 WP_100922045.1 biosynthetic-type acetolactate synthase large subunit -
  THSYN_RS28150 (THSYN_27940) - 6576168..6576863 (-) 696 WP_100922046.1 anaerobic ribonucleoside-triphosphate reductase activating protein -
  THSYN_RS28155 (THSYN_27945) nrdD 6577045..6577239 (-) 195 WP_100922047.1 anaerobic ribonucleoside-triphosphate reductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31362.47 Da        Isoelectric Point: 8.4927

>NTDB_id=221841 THSYN_RS28135 WP_100922043.1 6572329..6573201(+) (pilD) [Candidatus Thiodictyon syntrophicum strain Cad16T]
MLWIEVFNANPGLLYGSALALGLIVGSFLNVVILRLPRMMEASWRRECAELAGVPPADTEPALSLARPPSHCPSCGHRIR
ALENVPILSYLFLRGRCSACRTRISPRYPLIEGLTAVLTLIVVLRFGLSWQTLVALPLTWGLITLALIDFDTQLLPDSIS
VPLLWVGLLCSLFGLFTDSASAIIGAAAGYLSLWCVFQLFRLATGKEGMGYGDFKLLALFGAWFGWQFLPQILLLAALAG
ALLGTLLIVTGRHARGVPMPFGPFLAVAGFICLIWGPQLNAAYLRLAGLA

Nucleotide


Download         Length: 873 bp        

>NTDB_id=221841 THSYN_RS28135 WP_100922043.1 6572329..6573201(+) (pilD) [Candidatus Thiodictyon syntrophicum strain Cad16T]
ATGCTGTGGATCGAGGTCTTCAACGCCAACCCGGGCCTGCTCTACGGGTCCGCCCTGGCCCTGGGGCTGATTGTCGGGAG
CTTCCTCAACGTCGTGATCCTGCGCCTGCCGCGGATGATGGAGGCGAGTTGGCGCCGCGAGTGCGCGGAACTCGCCGGGG
TCCCGCCGGCCGACACCGAACCAGCGCTCAGCCTGGCCCGACCGCCGTCGCACTGTCCATCCTGCGGCCACCGGATCCGC
GCGTTGGAAAACGTCCCCATCCTGAGTTATCTGTTCCTGCGCGGGCGCTGCTCCGCCTGCCGCACACGCATCAGCCCCCG
CTACCCGCTGATCGAGGGCCTGACCGCGGTGCTGACCCTGATCGTGGTCCTGCGTTTCGGCCTGAGCTGGCAGACGCTGG
TCGCCTTGCCCCTGACCTGGGGACTGATTACGCTCGCGCTCATCGACTTCGACACCCAGTTGCTGCCGGACTCGATCAGC
GTCCCGCTCCTTTGGGTCGGTCTGCTGTGCAGCCTGTTCGGACTCTTCACGGACAGCGCCTCCGCAATCATCGGTGCCGC
CGCGGGCTATCTGAGCCTGTGGTGCGTCTTCCAGCTCTTTCGGCTGGCCACCGGCAAGGAGGGCATGGGCTACGGCGACT
TCAAGCTCCTGGCGCTCTTCGGGGCCTGGTTCGGCTGGCAGTTCCTGCCCCAGATCCTGCTGCTCGCGGCCTTGGCCGGG
GCCCTGCTCGGCACCCTGCTCATCGTCACCGGACGGCACGCCCGCGGGGTCCCCATGCCCTTCGGTCCCTTCCTGGCCGT
TGCCGGTTTCATCTGTCTGATCTGGGGTCCGCAGCTCAACGCCGCCTATCTGCGCCTCGCCGGCCTGGCGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-126)

Type IV leader peptidase family (Peptidase_A24)

(138-244)


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

49.653

99.31

0.493
  pilD Vibrio campbellii strain DS40M4

48.772

98.276

0.479
  pilD Acinetobacter nosocomialis M2

48.057

97.586

0.469
  pilD Acinetobacter baumannii D1279779

47.703

97.586

0.466
  pilD Neisseria gonorrhoeae MS11

49.412

87.931

0.434

Multiple sequence alignment