Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NRG74_RS21790 Genome accession   NZ_CP102428
Coordinates   4705061..4705933 (+) Length   290 a.a.
NCBI ID   WP_257705297.1    Uniprot ID   -
Organism   Pseudomonas oryzihabitans strain YY7     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4700061..4710933
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NRG74_RS21765 (NRG74_21765) - 4700180..4701178 (+) 999 WP_257705294.1 SDR family oxidoreductase -
  NRG74_RS21770 (NRG74_21770) pilA/pilAI 4701266..4701724 (-) 459 WP_307773990.1 pilin Machinery gene
  NRG74_RS21780 (NRG74_21780) pilB 4701937..4703631 (+) 1695 WP_257705296.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NRG74_RS21785 (NRG74_21785) pilC 4703844..4705061 (+) 1218 WP_027600839.1 type II secretion system F family protein Machinery gene
  NRG74_RS21790 (NRG74_21790) pilD 4705061..4705933 (+) 873 WP_257705297.1 A24 family peptidase Machinery gene
  NRG74_RS21795 (NRG74_21795) coaE 4705930..4706541 (+) 612 WP_017640819.1 dephospho-CoA kinase -
  NRG74_RS21800 (NRG74_21800) yacG 4706538..4706735 (+) 198 WP_257705298.1 DNA gyrase inhibitor YacG -
  NRG74_RS21805 (NRG74_21805) - 4706891..4707388 (-) 498 WP_173149049.1 hypothetical protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31706.86 Da        Isoelectric Point: 8.7237

>NTDB_id=716945 NRG74_RS21790 WP_257705297.1 4705061..4705933(+) (pilD) [Pseudomonas oryzihabitans strain YY7]
MALLEFLAGAPLAAALCALILGLLVGSFLNVVVYRLPVMLRRDWQAEAREVLELPPEPAGAPFNLARPASRCPHCQRAVR
PWENVPVLSYLLLRGRCKGCQSSISLRYPIVELACGLLSAWVIWHLGLTWQGGAFLLLTWGLLAASLIDADHQLLPDVIV
LPLLWLGLIVNQFGLFTTLSDAVWGAVVGYLSLWLVFQLFRLVTGKEGMGYGDFKLLALLGAWGGWQILPLTILLSSLVG
AILGVITLRLRRAKTSTPLPFGPYLAVAGWIALLWGDQITGLYLNFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=716945 NRG74_RS21790 WP_257705297.1 4705061..4705933(+) (pilD) [Pseudomonas oryzihabitans strain YY7]
ATGGCGCTGCTGGAGTTCCTGGCCGGCGCGCCGCTGGCCGCGGCGCTGTGCGCGCTGATCCTGGGGTTGCTGGTAGGCAG
CTTTCTCAATGTGGTGGTCTATCGCCTGCCGGTGATGCTGAGGCGCGACTGGCAGGCGGAGGCGCGTGAGGTGCTGGAAT
TGCCGCCCGAACCGGCGGGAGCGCCTTTCAATCTGGCGCGACCCGCTTCCCGCTGCCCCCATTGCCAGCGTGCCGTGCGG
CCCTGGGAAAACGTGCCAGTGTTGAGCTATCTGCTCTTGCGCGGTCGTTGCAAGGGCTGTCAGTCGAGCATCAGCCTGCG
TTATCCAATAGTGGAGTTGGCCTGCGGACTGCTATCCGCTTGGGTGATCTGGCATCTAGGCCTCACCTGGCAGGGCGGGG
CTTTCCTGCTGCTGACCTGGGGGCTGCTGGCGGCCAGTCTGATCGATGCCGATCATCAGCTGTTGCCGGATGTGATCGTC
TTGCCGCTGTTGTGGCTGGGGTTGATCGTCAATCAGTTCGGGCTGTTCACCACCCTCAGCGATGCCGTCTGGGGGGCGGT
GGTGGGCTATCTGAGTCTCTGGCTGGTGTTCCAGCTGTTTCGCCTGGTGACTGGCAAGGAGGGCATGGGTTATGGCGACT
TCAAGCTGCTGGCGCTACTAGGTGCCTGGGGTGGCTGGCAGATCCTGCCGCTCACCATCCTGCTGTCGTCGCTGGTGGGC
GCCATCCTGGGTGTCATCACCCTGCGGCTGCGGCGGGCGAAAACCAGTACGCCCTTGCCCTTCGGTCCCTATCTGGCCGT
GGCGGGGTGGATTGCCTTGCTCTGGGGTGATCAAATAACCGGCCTGTACCTGAATTTCGCCGGATTCCGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

49.296

97.931

0.483
  pilD Acinetobacter baumannii D1279779

52.06

92.069

0.479
  pilD Acinetobacter nosocomialis M2

51.311

92.069

0.472
  pilD Vibrio campbellii strain DS40M4

47.535

97.931

0.466
  pilD Neisseria gonorrhoeae MS11

49.446

93.448

0.462