Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   THITH_RS13945 Genome accession   NZ_CP007029
Coordinates   3114565..3115416 (+) Length   283 a.a.
NCBI ID   WP_025367580.1    Uniprot ID   -
Organism   Thioalkalivibrio paradoxus ARh     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3109565..3120416
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  THITH_RS13915 (THITH_14365) tuf 3109801..3110991 (-) 1191 WP_006747208.1 elongation factor Tu -
  THITH_RS13935 (THITH_14385) pilB 3111575..3113287 (+) 1713 WP_006747207.1 type IV-A pilus assembly ATPase PilB Machinery gene
  THITH_RS13940 (THITH_14390) pilC 3113295..3114503 (+) 1209 WP_006747206.1 type II secretion system F family protein Machinery gene
  THITH_RS13945 (THITH_14395) pilD 3114565..3115416 (+) 852 WP_025367580.1 A24 family peptidase Machinery gene
  THITH_RS13950 (THITH_14400) coaE 3115413..3116024 (+) 612 WP_006747204.1 dephospho-CoA kinase -
  THITH_RS13955 (THITH_14405) zapD 3116103..3116915 (+) 813 WP_006747203.1 cell division protein ZapD -
  THITH_RS13960 (THITH_14410) - 3116960..3117895 (-) 936 WP_006747202.1 Nudix family hydrolase -
  THITH_RS13965 (THITH_14415) argJ 3117909..3119120 (-) 1212 WP_006747201.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30572.33 Da        Isoelectric Point: 7.7248

>NTDB_id=116066 THITH_RS13945 WP_025367580.1 3114565..3115416(+) (pilD) [Thioalkalivibrio paradoxus ARh]
MLWTEVPAAWAIPAVAVLGLIVGSFLNVVIHRLPRMMQREWEHEARAILEQPEAPESPRYDLWWPRSQCPHCGRAIRARE
NIPVLSFLLLRARCPGCGGRISWQYPLVELLTAALFAVTVWQLGVGIAGLAALALTGVLIAAAGVDARTTLLPDQLTLPL
LWLGLVANLFGLFTDLESAVIGAVAGYLALWAVYHGFRLLTGKEGMGFGDFKLLAALGAWLGWQALPLILLLASLAGAIV
GIALILLRGRDRNVPIPFGPYLAAAGWLALIWGDTLIAAYLPP

Nucleotide


Download         Length: 852 bp        

>NTDB_id=116066 THITH_RS13945 WP_025367580.1 3114565..3115416(+) (pilD) [Thioalkalivibrio paradoxus ARh]
ATGCTCTGGACTGAAGTGCCCGCTGCCTGGGCGATTCCGGCGGTGGCCGTGCTCGGCCTGATCGTCGGCAGCTTCCTGAA
CGTGGTGATCCACCGGCTTCCGCGGATGATGCAGCGCGAGTGGGAACACGAGGCGCGTGCAATCCTGGAACAGCCCGAGG
CCCCCGAATCGCCGCGCTACGACCTCTGGTGGCCGCGCTCGCAGTGCCCTCATTGCGGGCGCGCGATCCGCGCCCGGGAG
AACATCCCGGTACTCAGCTTCCTGCTGCTGCGGGCGCGCTGCCCGGGCTGCGGCGGCCGGATTTCCTGGCAATACCCGCT
GGTGGAGCTGCTCACCGCCGCGCTGTTCGCGGTCACCGTCTGGCAGCTCGGTGTCGGCATCGCCGGCCTCGCGGCCCTCG
CCCTCACCGGGGTGCTGATCGCCGCGGCCGGGGTCGACGCGCGCACCACATTGCTCCCGGACCAGTTGACGTTGCCGCTG
CTCTGGCTGGGCCTGGTCGCGAACCTGTTCGGGCTGTTCACCGACCTCGAATCCGCGGTGATCGGAGCGGTCGCCGGCTA
CCTGGCGCTCTGGGCGGTCTACCACGGCTTCCGGCTGCTGACCGGCAAGGAAGGCATGGGCTTCGGCGATTTCAAGCTGC
TCGCCGCACTGGGCGCCTGGCTCGGCTGGCAGGCACTGCCGCTGATCCTGCTGCTCGCCTCGCTGGCAGGGGCGATCGTC
GGCATCGCACTGATCCTGCTGCGCGGGCGCGACCGCAACGTGCCGATCCCGTTCGGTCCCTATCTGGCCGCGGCCGGATG
GCTGGCGCTGATCTGGGGCGACACGCTGATCGCCGCGTATCTGCCGCCGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)

Type IV leader peptidase family (Peptidase_A24)

(134-242)


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

53.818

97.173

0.523
  pilD Acinetobacter baumannii D1279779

51.852

95.406

0.495
  pilD Vibrio campbellii strain DS40M4

51.866

94.7

0.491
  pilD Acinetobacter nosocomialis M2

51.481

95.406

0.491
  pilD Neisseria gonorrhoeae MS11

49.084

96.466

0.473

Multiple sequence alignment