Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CS053_RS04300 Genome accession   NZ_CP042807
Coordinates   1032319..1033179 (-) Length   286 a.a.
NCBI ID   WP_147626497.1    Uniprot ID   A0A5B9DZ24
Organism   Rhodanobacter glycinis strain T01E-68     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1027319..1038179
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CS053_RS04270 (CS053_04270) queC 1027520..1028206 (+) 687 WP_147626495.1 7-cyano-7-deazaguanine synthase QueC -
  CS053_RS04280 (CS053_04280) - 1028432..1029138 (-) 707 Protein_854 VTT domain-containing protein -
  CS053_RS04285 (CS053_04285) - 1029135..1029692 (-) 558 WP_147628529.1 nucleoside deaminase -
  CS053_RS04290 (CS053_04290) - 1029703..1031459 (-) 1757 Protein_856 glutamine--tRNA ligase/YqeY domain fusion protein -
  CS053_RS04295 (CS053_04295) coaE 1031705..1032322 (-) 618 WP_147626496.1 dephospho-CoA kinase -
  CS053_RS04300 (CS053_04300) pilD 1032319..1033179 (-) 861 WP_147626497.1 A24 family peptidase Machinery gene
  CS053_RS04305 (CS053_04305) pilC 1033427..1034695 (-) 1269 WP_147626498.1 type II secretion system F family protein Machinery gene
  CS053_RS04310 (CS053_04310) pilB 1035027..1036748 (-) 1722 WP_147626499.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31375.76 Da        Isoelectric Point: 9.1785

>NTDB_id=378687 CS053_RS04300 WP_147626497.1 1032319..1033179(-) (pilD) [Rhodanobacter glycinis strain T01E-68]
MPDLPLTVWIIFAGILGLLVGSFLNVVILRLPKRMAAEWRRDARDVLELGDDDAAPLPPGIVREPSHCPHCKHPLSALDN
IPLFGWLLLRGRCRYCKTRISIQYPLVELLGGVLSAIVVWKFGPTWTALAGLMFTWALIALSGIDFRTQLLPDQITFPLL
WLGLLLALLPMFVAAPSAIIGAAIGYLSLWSVYWLFKLLTGKEGMGHGDFKLLAALGAWMGPLALLPIILLSSLIGALVG
GSLIALRKHEREIPMPFGPFIAAAGWVWFIAGPQLLHAYMHLTGLR

Nucleotide


Download         Length: 861 bp        

>NTDB_id=378687 CS053_RS04300 WP_147626497.1 1032319..1033179(-) (pilD) [Rhodanobacter glycinis strain T01E-68]
ATGCCCGACCTGCCCCTTACCGTCTGGATCATCTTCGCCGGCATCCTCGGCTTGCTGGTCGGCAGCTTTCTCAACGTGGT
GATCCTGCGCCTGCCCAAGCGCATGGCAGCCGAATGGCGACGCGACGCCCGCGACGTGCTGGAGCTGGGTGACGACGACG
CAGCGCCACTGCCGCCGGGCATCGTGCGCGAACCGTCGCATTGCCCGCACTGCAAGCATCCGCTGTCGGCGCTGGACAAT
ATCCCGTTGTTCGGCTGGTTGCTGCTGCGTGGGCGCTGCCGCTACTGCAAGACGCGCATTTCGATCCAGTACCCGTTGGT
GGAACTGCTGGGTGGCGTGCTCAGCGCCATCGTGGTGTGGAAGTTCGGCCCCACCTGGACGGCGCTGGCCGGCCTGATGT
TCACTTGGGCGCTGATCGCACTCTCAGGCATCGATTTCCGTACCCAGTTGCTGCCGGACCAGATCACCTTTCCGCTGCTC
TGGCTGGGCCTGCTGCTGGCCTTGCTGCCGATGTTCGTGGCCGCGCCTTCGGCGATCATCGGCGCGGCGATCGGCTACCT
CAGCCTGTGGAGCGTGTATTGGCTGTTCAAACTGCTCACCGGCAAGGAAGGCATGGGCCACGGCGACTTCAAGCTGCTGG
CGGCGCTGGGTGCGTGGATGGGACCGCTGGCATTGCTGCCCATCATCCTGCTCTCGTCGTTGATCGGCGCGCTGGTCGGC
GGCAGCCTGATCGCACTGCGCAAGCACGAGCGCGAGATCCCCATGCCGTTCGGCCCGTTCATTGCCGCCGCGGGCTGGGT
CTGGTTTATCGCCGGACCGCAACTGCTGCACGCCTACATGCATCTCACCGGCTTGCGATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(15-122)

Type IV leader peptidase family (Peptidase_A24)

(133-240)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A5B9DZ24

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

50.177

98.951

0.497
  pilD Acinetobacter baumannii D1279779

49.455

96.154

0.476
  pilD Acinetobacter nosocomialis M2

49.455

96.154

0.476
  pilD Vibrio campbellii strain DS40M4

49.27

95.804

0.472
  pilD Neisseria gonorrhoeae MS11

48.12

93.007

0.448

Multiple sequence alignment