Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JY500_RS05885 Genome accession   NZ_CP071060
Coordinates   1269983..1270834 (-) Length   283 a.a.
NCBI ID   WP_206255475.1    Uniprot ID   -
Organism   Niveibacterium microcysteis strain HC41     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1264983..1275834
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JY500_RS05865 (JY500_05865) - 1265146..1266777 (-) 1632 WP_206255470.1 tetratricopeptide repeat-containing response regulator -
  JY500_RS05870 (JY500_05870) aspS 1266945..1268729 (-) 1785 WP_206255472.1 aspartate--tRNA ligase -
  JY500_RS05875 (JY500_05875) - 1268941..1269558 (-) 618 WP_172204038.1 DUF502 domain-containing protein -
  JY500_RS05880 (JY500_05880) - 1269558..1269827 (-) 270 WP_206255473.1 FmdB family zinc ribbon protein -
  JY500_RS05885 (JY500_05885) pilD 1269983..1270834 (-) 852 WP_206255475.1 A24 family peptidase Machinery gene
  JY500_RS05890 (JY500_05890) pilC 1270966..1272198 (-) 1233 WP_206255476.1 type II secretion system F family protein Machinery gene
  JY500_RS05895 (JY500_05895) pilB 1272214..1273935 (-) 1722 WP_206255478.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JY500_RS05900 (JY500_05900) ccsA 1274129..1274938 (-) 810 WP_206255479.1 cytochrome c biogenesis protein CcsA -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30101.56 Da        Isoelectric Point: 7.9615

>NTDB_id=542584 JY500_RS05885 WP_206255475.1 1269983..1270834(-) (pilD) [Niveibacterium microcysteis strain HC41]
MNDLAAPPELFAIVSCVIGLCIGSFLNVVIHRLPKIMEREWYAQAAELSGVPVANAPALSISQPRSRCPHCGTQIASWQN
VPLLSYLILRGRCAHCRASIGIRYPFVELLGGVSAAVAAWHFGFTWAALGAMAFGWAMIALTFIDLDTQLLPDSITLPLL
WLGLLLNVGGTYVPLDVAVIGAAAGYLALWSVYWLFKLATGKEGMGYGDFKLLAAIGAFVGWQQLPLVILASSAIGAVVG
IALIVFARHGRSTPIPFGPYLAGAGVVALYWGPSLTSSYLAQM

Nucleotide


Download         Length: 852 bp        

>NTDB_id=542584 JY500_RS05885 WP_206255475.1 1269983..1270834(-) (pilD) [Niveibacterium microcysteis strain HC41]
ATGAACGACCTCGCCGCGCCGCCTGAACTATTCGCAATAGTGAGCTGCGTTATTGGACTGTGCATTGGCAGTTTCCTGAA
CGTTGTGATCCATCGACTACCGAAGATCATGGAGAGAGAGTGGTATGCTCAGGCGGCGGAACTTAGCGGTGTGCCCGTTG
CCAACGCACCCGCTCTGTCGATTTCACAACCGCGCTCCCGATGCCCGCATTGCGGGACGCAGATCGCCAGCTGGCAAAAT
GTGCCTTTGCTGAGTTACTTGATCTTGCGTGGGCGGTGCGCCCATTGCCGGGCGTCGATTGGTATCCGATACCCGTTCGT
TGAGCTACTCGGAGGGGTATCCGCTGCGGTCGCGGCGTGGCACTTTGGTTTCACTTGGGCCGCGCTGGGCGCAATGGCGT
TTGGATGGGCGATGATTGCCTTGACCTTCATCGATCTTGACACCCAGCTGTTGCCGGACTCCATCACACTGCCCCTACTT
TGGTTGGGCCTGTTGCTCAACGTTGGGGGCACCTATGTACCGCTGGACGTCGCGGTCATCGGTGCTGCGGCGGGCTATCT
TGCGCTTTGGTCGGTCTACTGGTTGTTCAAGCTGGCCACAGGCAAGGAAGGCATGGGGTATGGCGATTTCAAGCTGCTGG
CTGCGATTGGTGCTTTTGTTGGGTGGCAACAGCTTCCGCTGGTGATATTGGCCTCGTCGGCGATCGGCGCAGTCGTTGGT
ATCGCACTTATCGTTTTTGCACGGCACGGTCGAAGCACCCCTATCCCCTTTGGCCCCTACCTCGCCGGCGCCGGAGTCGT
TGCGCTGTACTGGGGGCCCAGCCTGACCAGCAGTTACTTGGCGCAGATGTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)

Type IV leader peptidase family (Peptidase_A24)

(132-241)


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

53.763

98.587

0.53
  pilD Vibrio campbellii strain DS40M4

50.35

100

0.509
  pilD Acinetobacter nosocomialis M2

48.519

95.406

0.463
  pilD Acinetobacter baumannii D1279779

48.148

95.406

0.459
  pilD Neisseria gonorrhoeae MS11

47.191

94.346

0.445