Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CCZ28_RS11415 Genome accession   NZ_CP021645
Coordinates   2565630..2566502 (-) Length   290 a.a.
NCBI ID   WP_140218111.1    Uniprot ID   -
Organism   Pseudomonas oryzihabitans strain CS51     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2560630..2571502
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CCZ28_RS11395 (CCZ28_11370) recC 2560704..2564135 (-) 3432 WP_140218105.1 exodeoxyribonuclease V subunit gamma -
  CCZ28_RS11400 (CCZ28_11375) - 2564317..2564814 (+) 498 WP_140218107.1 hypothetical protein -
  CCZ28_RS11405 (CCZ28_11380) yacG 2564828..2565025 (-) 198 WP_058767413.1 DNA gyrase inhibitor YacG -
  CCZ28_RS11410 (CCZ28_11385) coaE 2565022..2565633 (-) 612 WP_140218109.1 dephospho-CoA kinase -
  CCZ28_RS11415 (CCZ28_11390) pilD 2565630..2566502 (-) 873 WP_140218111.1 A24 family peptidase Machinery gene
  CCZ28_RS11420 (CCZ28_11395) pilC 2566502..2567719 (-) 1218 WP_140218113.1 type II secretion system F family protein Machinery gene
  CCZ28_RS11425 (CCZ28_11400) pilB 2567928..2569622 (-) 1695 WP_140221328.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CCZ28_RS11430 (CCZ28_11405) - 2569835..2570371 (+) 537 WP_140218115.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  CCZ28_RS24835 (CCZ28_11410) - 2570538..2571391 (+) 854 Protein_2254 IS5 family transposase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31603.70 Da        Isoelectric Point: 8.2337

>NTDB_id=232197 CCZ28_RS11415 WP_140218111.1 2565630..2566502(-) (pilD) [Pseudomonas oryzihabitans strain CS51]
MALLDFLAGAPLAAALCALLLGLLVGSFLNVVVYRLPVMLRRDWQAEAREVLDLPPEPAGAPFNLARPASRCPHCQRAVR
PWENVPVVSYLLLRGRCKGCQTSIGLRYPLVELACGLLSAWVVWHLGVTWQGGAFLLLTWGLLAASLIDADHQLLPDIIV
LPLLWLGLIANQFGLFATLVDAVWGAVVGYLSLWLVFQLFRLVTGKEGMGYGDFKLLALLGAWGGWQILPLTILLSSLVG
AILGIITLRLRRAETSTPLPFGPYLAVAGWIALLWGDQITGLYLNFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=232197 CCZ28_RS11415 WP_140218111.1 2565630..2566502(-) (pilD) [Pseudomonas oryzihabitans strain CS51]
ATGGCGCTGCTGGACTTCCTGGCCGGCGCGCCGCTGGCCGCGGCCTTGTGTGCGCTGCTCCTGGGGCTGCTGGTAGGTAG
CTTTCTCAATGTAGTGGTGTATCGCTTGCCGGTGATGCTGAGGCGGGACTGGCAGGCCGAGGCGCGCGAGGTGCTGGACC
TGCCGCCTGAGCCAGCCGGCGCCCCTTTCAACCTGGCACGTCCCGCTTCGCGTTGTCCCCATTGCCAGCGCGCCGTGCGG
CCCTGGGAAAACGTGCCGGTGGTGAGTTATCTGCTCTTGCGCGGTCGCTGCAAGGGGTGCCAGACGAGCATCGGCCTGCG
TTATCCGTTGGTCGAGCTGGCCTGTGGATTGTTGTCCGCCTGGGTCGTTTGGCATCTGGGTGTGACCTGGCAGGGCGGGG
CATTTCTGCTGCTGACCTGGGGACTGTTGGCTGCCAGCCTGATCGACGCCGATCATCAGTTGCTGCCGGATATCATCGTA
CTGCCGCTGCTGTGGTTGGGCTTGATCGCCAATCAGTTCGGGCTGTTCGCTACGCTTGTCGATGCCGTCTGGGGCGCGGT
GGTGGGCTATTTGAGTCTGTGGCTGGTGTTTCAGCTCTTTCGCCTGGTGACTGGCAAGGAAGGCATGGGCTATGGCGACT
TCAAGCTGCTGGCCTTGCTCGGGGCCTGGGGTGGTTGGCAGATCCTGCCCTTGACCATCCTGCTGTCGTCGCTGGTGGGA
GCCATCCTCGGCATCATCACCCTGCGTTTGCGCCGGGCGGAAACCAGTACGCCCTTGCCCTTCGGTCCCTATCTCGCCGT
GGCGGGGTGGATTGCCTTGCTCTGGGGTGATCAAATAACCGGCCTGTACCTGAACTTCGCCGGATTCCGATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(137-245)


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 Acinetobacter baumannii D1279779

52.434

92.069

0.483
  pilD Acinetobacter nosocomialis M2

51.685

92.069

0.476
  pilD Neisseria gonorrhoeae MS11

49.638

95.172

0.472
  pilD Vibrio cholerae strain A1552

50.37

93.103

0.469
  pilD Vibrio campbellii strain DS40M4

48.889

93.103

0.455

Multiple sequence alignment