Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OCV04_RS12505 Genome accession   NZ_AP024893
Coordinates   2718373..2719242 (+) Length   289 a.a.
NCBI ID   WP_171138260.1    Uniprot ID   -
Organism   Vibrio plantisponsor strain CECT 7581     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2713373..2724242
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OCV04_RS12485 nadC 2713745..2714632 (+) 888 WP_042484530.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OCV04_RS12490 - 2714901..2715344 (+) 444 WP_171138258.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OCV04_RS12495 pilB 2715360..2717048 (+) 1689 WP_171138259.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OCV04_RS20780 - 2717184..2717360 (-) 177 WP_390632044.1 hypothetical protein -
  OCV04_RS12500 pilC 2717304..2718293 (+) 990 WP_390632046.1 type II secretion system F family protein Machinery gene
  OCV04_RS12505 pilD 2718373..2719242 (+) 870 WP_171138260.1 A24 family peptidase Machinery gene
  OCV04_RS12510 coaE 2719246..2719854 (+) 609 WP_102940963.1 dephospho-CoA kinase -
  OCV04_RS12515 zapD 2719886..2720626 (+) 741 WP_102940962.1 cell division protein ZapD -
  OCV04_RS12520 yacG 2720672..2720875 (+) 204 WP_171138261.1 DNA gyrase inhibitor YacG -
  OCV04_RS12525 parC 2720942..2723221 (-) 2280 WP_171138262.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32380.46 Da        Isoelectric Point: 6.2262

>NTDB_id=89224 OCV04_RS12505 WP_171138260.1 2718373..2719242(+) (pilD) [Vibrio plantisponsor strain CECT 7581]
MEIFEYYPWLFVASASLLGLIIGSFLNVVIYRLPKMMEREWRQECAEYFPESNIQVPEGKLTLSTPRSTCPSCQTPLRIM
DNVPVISWLLLRGKCAHCQVPISARYPLIELLTAAMSFLVAQHFGFSYFTIALLFFSYVLIAATFIDLDTMLLPDQLTLP
LLWAGITLSLIGISPVSLQDAIIGAIAGYLALWSVYWVFKLATGKEGMGYGDFKLLAALGAWLGWQQLPLIILLSSLVGL
VFGIIQLRLKKQGIDKAFPFGPYIAIAGWIALLWGHEIIDSYYSYLLGY

Nucleotide


Download         Length: 870 bp        

>NTDB_id=89224 OCV04_RS12505 WP_171138260.1 2718373..2719242(+) (pilD) [Vibrio plantisponsor strain CECT 7581]
ATGGAAATTTTTGAATACTATCCTTGGCTTTTCGTAGCATCTGCCTCTCTACTCGGTTTAATTATCGGCAGCTTTCTCAA
TGTGGTGATCTATCGGCTACCGAAAATGATGGAGCGAGAATGGCGTCAGGAATGTGCGGAATATTTTCCAGAATCCAACA
TTCAAGTGCCAGAAGGCAAGCTGACCCTTAGCACACCACGCTCAACTTGCCCGAGTTGCCAAACACCACTGCGCATTATG
GATAATGTACCCGTGATTAGCTGGCTGCTATTGCGTGGTAAATGCGCCCATTGTCAGGTTCCCATCAGTGCGCGTTATCC
GTTGATTGAGCTCCTTACAGCAGCGATGAGCTTTCTTGTCGCACAACATTTTGGCTTTAGTTACTTCACTATTGCCTTGT
TGTTTTTCAGCTATGTTCTCATCGCAGCAACCTTTATCGATTTAGATACCATGTTGCTGCCAGATCAACTGACACTCCCG
TTGCTTTGGGCGGGTATTACACTTTCACTTATAGGTATAAGCCCAGTTTCTCTGCAAGATGCCATTATCGGCGCTATCGC
GGGTTATTTAGCCTTGTGGTCTGTGTACTGGGTCTTCAAGCTCGCAACAGGCAAAGAAGGTATGGGATATGGTGATTTTA
AACTGCTTGCGGCACTGGGTGCTTGGTTGGGCTGGCAGCAGTTGCCTCTGATTATTCTGCTTTCATCCTTAGTAGGGCTT
GTGTTTGGTATCATTCAACTGCGATTAAAGAAGCAAGGTATCGATAAAGCCTTCCCTTTTGGACCTTATATTGCCATTGC
TGGATGGATAGCTCTTCTGTGGGGACACGAAATCATTGATAGCTACTACTCTTACTTATTGGGGTACTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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 campbellii strain DS40M4

75

99.654

0.747
  pilD Vibrio cholerae strain A1552

73.958

99.654

0.737
  pilD Acinetobacter baumannii D1279779

55.678

94.464

0.526
  pilD Acinetobacter nosocomialis M2

55.311

94.464

0.522
  pilD Neisseria gonorrhoeae MS11

51.172

88.581

0.453

Multiple sequence alignment