Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CKV94_RS03675 Genome accession   NZ_LT906482
Coordinates   731319..732176 (+) Length   285 a.a.
NCBI ID   WP_003823525.1    Uniprot ID   A0A8B4GDN0
Organism   Eikenella corrodens strain NCTC10596     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 726319..737176
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CKV94_RS03660 (SAMEA4412678_00731) recJ 726358..728055 (+) 1698 WP_003823521.1 single-stranded-DNA-specific exonuclease RecJ -
  CKV94_RS03665 (SAMEA4412678_00732) pilF 728301..729977 (+) 1677 WP_003823522.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CKV94_RS03670 (SAMEA4412678_00733) pilG 730009..731244 (+) 1236 WP_003823524.1 type II secretion system F family protein Machinery gene
  CKV94_RS03675 (SAMEA4412678_00734) pilD 731319..732176 (+) 858 WP_003823525.1 A24 family peptidase Machinery gene
  CKV94_RS03680 (SAMEA4412678_00735) coaE 732178..732783 (+) 606 WP_003823526.1 dephospho-CoA kinase -
  CKV94_RS03685 (SAMEA4412678_00736) zapD 732787..733563 (+) 777 WP_003823527.1 cell division protein ZapD -
  CKV94_RS03690 (SAMEA4412678_00737) yacG 733560..733742 (+) 183 WP_003823528.1 DNA gyrase inhibitor YacG -
  CKV94_RS03695 (SAMEA4412678_00738) rlmD 733810..735102 (+) 1293 WP_003823529.1 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD -
  CKV94_RS03705 (SAMEA4412678_00739) - 735344..736351 (-) 1008 WP_003825078.1 IS5 family transposase -

Sequence

Protein


Download         Length: 285 a.a.        Molecular weight: 31455.59 Da        Isoelectric Point: 9.0510

>NTDB_id=1148100 CKV94_RS03675 WP_003823525.1 731319..732176(+) (pilD) [Eikenella corrodens strain NCTC10596]
MTNLDPEIYIPFAVLLGLLVGSFLNVVIYRLPVMLEKQWRIAAKQHLELPLDEEDQKPFNISTPPSRCPKCGSPVKPWQN
IPIISYLLLRGRCHSCRTPIGWRYPAVELLTGILFGIVAWRYGYTWLTLGGLVFTAVLVALTFIDADTQLLPDQLTLPLI
WLGLLFNWQVGFVSLPSALLGAVVGYLSLWLLFHLFKLITGKEGMGYGDFKLLAALGAWLGVSTLPVIVFVAALVGLVAA
LVMRAAKGQPIAFGPALAIAGWLVFAANSYILQGIQWWLHKSGFI

Nucleotide


Download         Length: 858 bp        

>NTDB_id=1148100 CKV94_RS03675 WP_003823525.1 731319..732176(+) (pilD) [Eikenella corrodens strain NCTC10596]
ATGACCAATCTTGATCCCGAAATCTACATCCCCTTCGCCGTCCTGCTCGGCCTGCTGGTGGGCAGCTTTCTTAACGTGGT
TATCTACCGCCTGCCGGTCATGCTCGAGAAACAATGGCGCATTGCTGCCAAACAGCATCTCGAACTGCCGCTGGACGAAG
AAGACCAAAAACCGTTCAATATCAGCACCCCGCCCTCACGCTGCCCCAAATGCGGCAGCCCGGTAAAACCGTGGCAGAAC
ATCCCCATCATCAGCTACTTGCTGCTGCGCGGCCGCTGCCATAGCTGTCGCACCCCCATCGGCTGGCGTTACCCCGCCGT
CGAGCTGCTCACCGGCATCCTATTTGGCATCGTCGCTTGGCGATACGGCTACACTTGGCTCACCCTTGGCGGCCTCGTAT
TCACCGCCGTACTGGTTGCCCTCACCTTTATCGACGCCGACACCCAGCTCTTGCCCGACCAGCTCACCCTGCCCCTGATT
TGGCTCGGCCTGCTGTTTAACTGGCAAGTCGGCTTCGTCAGCCTGCCTTCAGCCCTGCTCGGCGCCGTGGTCGGCTATTT
GAGCCTTTGGCTGCTGTTCCACCTGTTCAAACTCATCACCGGCAAGGAGGGCATGGGTTATGGCGACTTCAAACTACTCG
CCGCACTGGGCGCCTGGCTTGGCGTCAGCACCCTGCCCGTTATTGTTTTCGTGGCCGCCTTGGTTGGCCTAGTTGCCGCC
CTAGTAATGCGTGCCGCTAAAGGCCAACCTATCGCCTTCGGCCCCGCGCTCGCCATTGCCGGCTGGCTGGTTTTCGCTGC
CAACAGCTATATCCTGCAAGGCATCCAATGGTGGCTGCACAAATCCGGATTCATCTGA

Domains

Predicted by InterProScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(15-122)

Type IV leader peptidase family (Peptidase_A24)

(132-240)


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 Neisseria gonorrhoeae MS11

64.444

94.737

0.611
  pilD Acinetobacter nosocomialis M2

49.632

95.439

0.474
  pilD Acinetobacter baumannii D1279779

49.265

95.439

0.47
  pilD Vibrio cholerae strain A1552

49.621

92.632

0.46
  pilD Vibrio campbellii strain DS40M4

49.43

92.281

0.456

Multiple sequence alignment