Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACK3CJ_RS05030 Genome accession   NZ_CP176580
Coordinates   1077898..1078767 (-) Length   289 a.a.
NCBI ID   WP_409525333.1    Uniprot ID   -
Organism   Nitrincola sp. WZQS7-5     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1072898..1083767
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACK3CJ_RS05010 - 1073128..1073850 (+) 723 WP_409525328.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -
  ACK3CJ_RS05015 - 1074026..1075024 (+) 999 WP_409525329.1 iron ABC transporter substrate-binding protein -
  ACK3CJ_RS05020 - 1075214..1076806 (+) 1593 WP_409525331.1 ABC transporter permease -
  ACK3CJ_RS05025 - 1076803..1077882 (+) 1080 WP_409525332.1 ABC transporter ATP-binding protein -
  ACK3CJ_RS05030 pilD 1077898..1078767 (-) 870 WP_409525333.1 prepilin peptidase Machinery gene
  ACK3CJ_RS05035 pilC 1078793..1080022 (-) 1230 WP_409525334.1 type II secretion system F family protein Machinery gene
  ACK3CJ_RS05040 pilB 1080041..1081756 (-) 1716 WP_409525335.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACK3CJ_RS05045 - 1082030..1083658 (+) 1629 WP_409525336.1 sensor histidine kinase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31888.72 Da        Isoelectric Point: 5.9843

>NTDB_id=1081047 ACK3CJ_RS05030 WP_409525333.1 1077898..1078767(-) (pilD) [Nitrincola sp. WZQS7-5]
MILAFELFPAGSGWAALTGLLFSLLVGSFLNVVILRLPVMMEREWKAAMVAEDQDSARTTTEGEPPFNLATPRSRCGHCG
HLITWYENIPVFSYLFLRGRCSSCQTSISIRYPLIELLSGLAGAFIAWRYGITPLGVALLLMTWTLIALTFIDIDHHLLP
DSLTLPLLWLGLILNSFELITSLSDAVWGAALGYLVLWSVYWLFKLLTGKEGMGYGDFKLLAAFGAWGGVSVLPMVILFS
SVAGVILAGLMIAVKRHEAQNPLPFGPYLAIAGWVALLWGQDILNWYLY

Nucleotide


Download         Length: 870 bp        

>NTDB_id=1081047 ACK3CJ_RS05030 WP_409525333.1 1077898..1078767(-) (pilD) [Nitrincola sp. WZQS7-5]
TTGATACTCGCATTTGAACTTTTCCCTGCCGGCAGTGGTTGGGCCGCTTTGACAGGGCTGCTGTTTTCGCTGCTGGTGGG
TAGTTTTCTGAACGTGGTCATTCTGCGCCTACCGGTGATGATGGAGCGTGAGTGGAAGGCTGCCATGGTGGCAGAGGATC
AAGATTCAGCTCGCACTACTACGGAAGGAGAGCCACCCTTTAATCTGGCCACCCCTCGTTCACGCTGCGGTCATTGTGGT
CATCTGATCACCTGGTATGAAAATATACCGGTATTCAGCTATCTGTTTCTGCGTGGTCGCTGCAGTTCTTGCCAGACATC
CATCTCGATTCGCTACCCTCTGATTGAACTGCTCAGCGGCCTGGCCGGTGCATTCATTGCCTGGCGTTACGGCATCACAC
CACTCGGCGTAGCACTGCTGCTGATGACCTGGACACTGATTGCACTCACATTTATCGATATTGATCATCACCTCCTCCCA
GACAGCCTGACACTGCCGCTGCTGTGGCTGGGGCTGATACTGAACAGCTTTGAACTGATCACGAGCCTGTCTGATGCGGT
GTGGGGTGCTGCGCTGGGGTATCTGGTGCTCTGGAGTGTTTACTGGCTGTTCAAGCTGCTGACCGGCAAAGAGGGGATGG
GCTACGGCGACTTCAAGCTGCTGGCTGCCTTCGGTGCCTGGGGTGGCGTGTCGGTGCTGCCGATGGTGATTCTTTTCTCA
TCGGTGGCCGGTGTGATTCTGGCTGGCTTGATGATTGCGGTAAAGCGGCATGAAGCGCAGAACCCGCTGCCCTTCGGCCC
TTACCTGGCAATAGCCGGTTGGGTCGCCCTGCTCTGGGGCCAGGATATTCTGAACTGGTATCTGTACTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(141-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-130)


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 campbellii strain DS40M4

54.745

94.81

0.519
  pilD Vibrio cholerae strain A1552

55.762

93.08

0.519
  pilD Acinetobacter baumannii D1279779

50.73

94.81

0.481
  pilD Acinetobacter nosocomialis M2

50.365

94.81

0.478
  pilD Neisseria gonorrhoeae MS11

49.265

94.118

0.464

Multiple sequence alignment