Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ALVIN_RS00810 Genome accession   NC_013851
Coordinates   168943..169833 (-) Length   296 a.a.
NCBI ID   WP_012969406.1    Uniprot ID   D3RVK3
Organism   Allochromatium vinosum DSM 180     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 163943..174833
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ALVIN_RS00790 (Alvin_0157) glcE 165338..166420 (+) 1083 WP_012969402.1 glycolate oxidase subunit GlcE -
  ALVIN_RS00795 (Alvin_0158) glcF 166438..167664 (+) 1227 WP_012969403.1 glycolate oxidase subunit GlcF -
  ALVIN_RS00800 (Alvin_0159) - 167704..168051 (-) 348 WP_012969404.1 hypothetical protein -
  ALVIN_RS00805 (Alvin_0160) coaE 168335..168946 (-) 612 WP_012969405.1 dephospho-CoA kinase -
  ALVIN_RS00810 (Alvin_0161) pilD 168943..169833 (-) 891 WP_012969406.1 A24 family peptidase Machinery gene
  ALVIN_RS00815 (Alvin_0162) pilC 169860..171110 (-) 1251 WP_012969407.1 type II secretion system F family protein Machinery gene
  ALVIN_RS00820 (Alvin_0163) pilB 171133..172848 (-) 1716 WP_012969408.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ALVIN_RS00825 (Alvin_0164) - 172875..173708 (-) 834 WP_012969409.1 NYN domain-containing protein -

Sequence

Protein


Download         Length: 296 a.a.        Molecular weight: 32140.08 Da        Isoelectric Point: 7.6366

>NTDB_id=36256 ALVIN_RS00810 WP_012969406.1 168943..169833(-) (pilD) [Allochromatium vinosum DSM 180]
MSTPAWLELLQTNLWLLYTSAVLLGLIFGSFLNVVILRLPRMMEAGWRRDCAELLSPDGTAPETDEPPLSLSKPASTCPS
CGHRLRVHENIPILSYVWLRGRCSKCKTRISLRYPLVEALTALLTLIVVIQFGPTWQAAAALLLTWSLIALAVIDLDTQL
LPDSLTLPVLWLGLFLSLFGLFTDSQSAIIGAVAGYLSLWTVFQLFRLATGKEGMGYGDFKLLALFGAWLGWPALPQIIL
LSALVGALVGVGLILSGRHESGKPLPFGPYLAAAGWISLIWGEAINGAYLRLSGLA

Nucleotide


Download         Length: 891 bp        

>NTDB_id=36256 ALVIN_RS00810 WP_012969406.1 168943..169833(-) (pilD) [Allochromatium vinosum DSM 180]
ATGTCAACACCCGCCTGGCTGGAACTGCTCCAGACGAACCTCTGGCTGCTGTATACGAGCGCCGTGCTGCTCGGACTCAT
CTTCGGCAGCTTCCTCAACGTCGTCATCCTGCGTCTGCCGCGCATGATGGAGGCCGGCTGGCGACGCGATTGCGCCGAAC
TCCTGAGTCCGGACGGGACGGCGCCGGAGACCGATGAGCCGCCGCTCAGTCTGTCGAAACCCGCCTCGACCTGCCCGAGC
TGCGGGCATCGCCTCCGCGTCCACGAGAACATCCCCATCCTGAGTTATGTGTGGCTGCGCGGGCGCTGCTCGAAGTGCAA
GACACGGATCAGCCTGCGCTATCCGCTCGTCGAGGCACTCACGGCGCTCCTGACCCTGATCGTGGTGATTCAGTTCGGCC
CGACCTGGCAGGCGGCGGCGGCCCTGCTGCTCACCTGGTCGCTGATCGCGCTCGCCGTCATCGACCTCGATACCCAGCTC
CTGCCCGACAGCCTCACCCTGCCCGTCCTGTGGCTGGGACTGTTCCTGAGTCTGTTCGGGCTCTTCACCGACAGCCAGAG
CGCCATCATCGGCGCCGTCGCCGGCTATCTGAGTCTGTGGACGGTGTTTCAGCTCTTCCGGCTCGCCACGGGCAAGGAGG
GCATGGGCTATGGTGACTTCAAGCTGCTGGCACTGTTCGGCGCCTGGCTCGGCTGGCCGGCGCTGCCGCAGATCATCCTG
CTCTCGGCGCTGGTCGGCGCGCTGGTCGGGGTTGGGTTGATCCTGAGCGGCCGGCACGAGTCGGGCAAGCCGCTGCCTTT
CGGTCCCTATCTGGCCGCCGCCGGCTGGATCAGTCTGATCTGGGGCGAGGCGATCAATGGCGCCTATCTGCGTCTGAGCG
GACTGGCGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(143-251)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(23-132)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB D3RVK3

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

52.281

96.284

0.503
  pilD Vibrio campbellii strain DS40M4

51.557

97.635

0.503
  pilD Acinetobacter nosocomialis M2

52.158

93.919

0.49
  pilD Acinetobacter baumannii D1279779

51.439

93.919

0.483
  pilD Neisseria gonorrhoeae MS11

48.315

90.203

0.436

Multiple sequence alignment