Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AZKH_RS17700 Genome accession   NC_020516
Coordinates   3959367..3960218 (+) Length   283 a.a.
NCBI ID   WP_015437161.1    Uniprot ID   H0Q420
Organism   Azoarcus sp. KH32C     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3954367..3965218
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AZKH_RS17685 (AZKH_3570) - 3955391..3956218 (+) 828 WP_015437157.1 inner membrane protein YpjD -
  AZKH_RS17690 (AZKH_3571) pilB 3956341..3958059 (+) 1719 WP_015437158.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AZKH_RS17695 (AZKH_3572) pilC 3958077..3959312 (+) 1236 WP_015437159.1 type II secretion system F family protein Machinery gene
  AZKH_RS17700 (AZKH_3574) pilD 3959367..3960218 (+) 852 WP_015437161.1 A24 family peptidase Machinery gene
  AZKH_RS17705 (AZKH_3575) - 3960347..3960610 (+) 264 WP_015437162.1 FmdB family zinc ribbon protein -
  AZKH_RS17710 (AZKH_3576) - 3960626..3961249 (+) 624 WP_041656347.1 DUF502 domain-containing protein -
  AZKH_RS17715 (AZKH_3577) aspS 3961294..3963093 (+) 1800 WP_015437164.1 aspartate--tRNA ligase -
  AZKH_RS17720 (AZKH_3578) - 3963263..3964882 (+) 1620 WP_015437165.1 response regulator -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 31023.54 Da        Isoelectric Point: 7.7282

>NTDB_id=56720 AZKH_RS17700 WP_015437161.1 3959367..3960218(+) (pilD) [Azoarcus sp. KH32C]
MSEFLRDPVVFTTLATLLGLFVGSFLNVVIHRLPKMMEREWHAQAAELRDEPIPEREPFNLATPRSRCPHCGHQITALEN
IPVVSYLILRGRCSHCAASISRRYPIVEVLTAGLTGYAAWHFGYGAAALGAFCFVWAMVAMTFIDLDTQLLPDSLTLPLL
WLGLALNLGSTYVELSNAVIGAMAGYLSLWSVFWLFKLTTGKEGMGYGDFKLLAAVGAWLGWQMLPLTILFSSLVGALAG
IGLIAFARHGRNVPIPFGPYLAAAGVLALFWGKRITDLYLATF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=56720 AZKH_RS17700 WP_015437161.1 3959367..3960218(+) (pilD) [Azoarcus sp. KH32C]
ATGTCCGAATTTCTGCGCGACCCCGTAGTATTCACCACGCTTGCCACCCTGCTCGGCCTGTTCGTCGGGAGTTTTCTCAA
TGTCGTGATTCACCGCCTTCCGAAAATGATGGAACGGGAGTGGCATGCCCAAGCGGCCGAATTGCGTGACGAGCCGATTC
CCGAGCGCGAACCGTTCAACCTCGCCACCCCGCGCTCGCGCTGCCCACACTGCGGTCATCAGATCACCGCGCTGGAAAAC
ATCCCCGTCGTGAGCTACCTGATCCTGCGCGGGCGCTGCAGTCACTGTGCCGCGTCCATCAGCCGGCGTTATCCGATCGT
GGAAGTGCTGACGGCAGGCCTTACGGGCTATGCGGCCTGGCACTTCGGCTATGGAGCGGCGGCTCTTGGTGCCTTCTGTT
TCGTCTGGGCCATGGTCGCAATGACCTTCATCGATCTGGACACCCAACTGCTCCCCGACTCGCTGACCCTGCCCTTGCTA
TGGCTGGGCCTCGCCCTCAATCTCGGCAGCACCTACGTGGAGCTGTCGAACGCGGTAATCGGCGCCATGGCAGGTTATCT
CTCGCTGTGGTCGGTCTTCTGGCTCTTCAAGCTCACCACCGGCAAGGAAGGCATGGGCTATGGGGACTTCAAGCTGCTCG
CGGCCGTCGGCGCGTGGCTGGGCTGGCAGATGCTGCCGCTGACCATCCTGTTTTCGTCCCTCGTGGGGGCCCTTGCCGGC
ATCGGACTGATCGCGTTCGCGCGTCACGGGCGGAATGTACCGATTCCATTCGGCCCCTACCTTGCCGCTGCGGGCGTGCT
TGCGCTCTTCTGGGGCAAGCGGATCACGGACTTGTACCTGGCGACATTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)

Type IV leader peptidase family (Peptidase_A24)

(134-241)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB H0Q420

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

56.643

100

0.572
  pilD Vibrio campbellii strain DS40M4

54.035

100

0.544
  pilD Acinetobacter baumannii D1279779

46.809

99.647

0.466
  pilD Neisseria gonorrhoeae MS11

51.765

90.106

0.466
  pilD Acinetobacter nosocomialis M2

46.099

99.647

0.459

Multiple sequence alignment