Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ABU640_RS02375 Genome accession   NZ_CP161854
Coordinates   500539..501414 (-) Length   291 a.a.
NCBI ID   WP_032476647.1    Uniprot ID   -
Organism   Vibrio cholerae strain C3616     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 495539..506414
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABU640_RS02355 (ABU640_02355) parC 496473..498758 (+) 2286 WP_339443584.1 DNA topoisomerase IV subunit A -
  ABU640_RS02360 (ABU640_02360) yacG 498807..499004 (-) 198 WP_000162863.1 DNA gyrase inhibitor YacG -
  ABU640_RS02365 (ABU640_02365) zapD 499162..499902 (-) 741 WP_000207194.1 cell division protein ZapD -
  ABU640_RS02370 (ABU640_02370) coaE 499934..500542 (-) 609 WP_000011550.1 dephospho-CoA kinase -
  ABU640_RS02375 (ABU640_02375) pilD 500539..501414 (-) 876 WP_032476647.1 A24 family peptidase Machinery gene
  ABU640_RS02380 (ABU640_02380) pilC 501472..502698 (-) 1227 WP_000648512.1 type II secretion system F family protein Machinery gene
  ABU640_RS02385 (ABU640_02385) pilB 502741..504429 (-) 1689 WP_032481238.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABU640_RS02390 (ABU640_02390) - 504429..504914 (-) 486 WP_000649332.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  ABU640_RS02395 (ABU640_02395) nadC 505159..506049 (-) 891 WP_000665269.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32437.74 Da        Isoelectric Point: 7.6293

>NTDB_id=1022758 ABU640_RS02375 WP_032476647.1 500539..501414(-) (pilD) [Vibrio cholerae strain C3616]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGKCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFGVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LMWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=1022758 ABU640_RS02375 WP_032476647.1 500539..501414(-) (pilD) [Vibrio cholerae strain C3616]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTCGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTCATT
GATAATATTCCGCTACTGAGTTGGCTGGCGCTGCGCGGCAAATGCTCACACTGTAAAGCACCGATCAGCGCTCGTTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTAATTGCCACTCACTTTCCGTTCGGAGTGTTTGGCGTGGCGCTGC
TGTTTTTCAGCTATGTGTTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACATTACCC
TTAATGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGTGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTCGGGGTG
ATTTTCGGTTTAATCCAACTTCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATAGC
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

98.969

100

0.99
  pilD Vibrio campbellii strain DS40M4

76.042

98.969

0.753
  pilD Acinetobacter nosocomialis M2

54.044

93.471

0.505
  pilD Acinetobacter baumannii D1279779

53.676

93.471

0.502
  pilD Neisseria gonorrhoeae MS11

45.139

98.969

0.447

Multiple sequence alignment