Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   Sa5Y_RS02440 Genome accession   NZ_CP028892
Coordinates   485222..486097 (-) Length   291 a.a.
NCBI ID   WP_033932898.1    Uniprot ID   -
Organism   Vibrio cholerae strain Sa5Y     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 480222..491097
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Sa5Y_RS02415 (Sa5Y_VC00476) parC 481156..483441 (+) 2286 WP_046121363.1 DNA topoisomerase IV subunit A -
  Sa5Y_RS02420 (Sa5Y_VC00477) yacG 483490..483687 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  Sa5Y_RS02430 (Sa5Y_VC00478) zapD 483845..484585 (-) 741 WP_000207193.1 cell division protein ZapD -
  Sa5Y_RS02435 (Sa5Y_VC00479) coaE 484617..485225 (-) 609 WP_162298799.1 dephospho-CoA kinase -
  Sa5Y_RS02440 (Sa5Y_VC00480) pilD 485222..486097 (-) 876 WP_033932898.1 A24 family peptidase Machinery gene
  Sa5Y_RS02445 (Sa5Y_VC00481) pilC 486155..487381 (-) 1227 WP_000648506.1 type II secretion system F family protein Machinery gene
  Sa5Y_RS02450 (Sa5Y_VC00482) pilB 487424..489112 (-) 1689 WP_108243691.1 type IV-A pilus assembly ATPase PilB Machinery gene
  Sa5Y_RS02455 (Sa5Y_VC00483) pilA 489116..489544 (-) 429 WP_094393042.1 pilin Machinery gene
  Sa5Y_RS02460 (Sa5Y_VC00484) nadC 489789..490679 (-) 891 WP_094393041.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32433.69 Da        Isoelectric Point: 7.1618

>NTDB_id=288207 Sa5Y_RS02440 WP_033932898.1 485222..486097(-) (pilD) [Vibrio cholerae strain Sa5Y]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFGVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTAKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=288207 Sa5Y_RS02440 WP_033932898.1 485222..486097(-) (pilD) [Vibrio cholerae strain Sa5Y]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTCGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCAAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTCATT
GATAATATTCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGTGCTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCCACTCACTTTCCGTTCGGAGTGTTTGGCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTATTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCGCTGGCACTGCTTGGCTTTTCTCCGGTTTCACTCAGTGATGCGGTTATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACAGCTAAAGAAGGCATGGGTTATGGTGATTTCA
AATTGCTCGCCGCACTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTTGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCGTTATGA

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 cholerae strain A1552

99.313

100

0.993
  pilD Vibrio campbellii strain DS40M4

75

98.969

0.742
  pilD Acinetobacter nosocomialis M2

53.309

93.471

0.498
  pilD Acinetobacter baumannii D1279779

52.941

93.471

0.495
  pilD Neisseria gonorrhoeae MS11

44.444

98.969

0.44

Multiple sequence alignment