Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CLM72_RS04055 Genome accession   NZ_CP023269
Coordinates   902248..903114 (-) Length   288 a.a.
NCBI ID   WP_105225695.1    Uniprot ID   A0A2S9E2I1
Organism   Pseudomonas sp. MYb193     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 897248..908114
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CLM72_RS04020 (CLM72_04000) - 898120..899418 (-) 1299 WP_105225692.1 NAD(P)/FAD-dependent oxidoreductase -
  CLM72_RS04025 (CLM72_04005) - 899479..899652 (-) 174 WP_034126248.1 DUF3094 family protein -
  CLM72_RS04030 (CLM72_04010) - 899707..900336 (-) 630 WP_003188431.1 DUF1780 domain-containing protein -
  CLM72_RS04035 (CLM72_04015) - 900465..901154 (+) 690 WP_105225693.1 energy-coupling factor ABC transporter permease -
  CLM72_RS04040 (CLM72_04020) - 901219..901434 (+) 216 WP_003171680.1 hypothetical protein -
  CLM72_RS04045 (CLM72_04025) yacG 901431..901631 (-) 201 WP_003188437.1 DNA gyrase inhibitor YacG -
  CLM72_RS04050 (CLM72_04030) coaE 901628..902251 (-) 624 WP_105225694.1 dephospho-CoA kinase -
  CLM72_RS04055 (CLM72_04035) pilD 902248..903114 (-) 867 WP_105225695.1 A24 family peptidase Machinery gene
  CLM72_RS04060 (CLM72_04040) pilC 903111..904319 (-) 1209 WP_105225696.1 type II secretion system F family protein Machinery gene
  CLM72_RS04065 (CLM72_04045) - 904521..904934 (+) 414 WP_034126254.1 pilin -
  CLM72_RS04075 (CLM72_04055) - 905239..906450 (+) 1212 WP_105225697.1 integrase arm-type DNA-binding domain-containing protein -
  CLM72_RS04080 (CLM72_04060) - 906420..906671 (-) 252 WP_256595276.1 AlpA family transcriptional regulator -
  CLM72_RS28665 - 906721..906966 (-) 246 WP_146120434.1 hypothetical protein -
  CLM72_RS28670 - 907016..907282 (-) 267 WP_146120433.1 hypothetical protein -
  CLM72_RS04090 (CLM72_04070) - 907279..907524 (-) 246 WP_105225700.1 hypothetical protein -
  CLM72_RS04095 (CLM72_04075) - 907521..907769 (-) 249 WP_105225701.1 hypothetical protein -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31781.99 Da        Isoelectric Point: 7.3270

>NTDB_id=245608 CLM72_RS04055 WP_105225695.1 902248..903114(-) (pilD) [Pseudomonas sp. MYb193]
MSLLLSEHPWAFVGLALVLGLIVGSFLNVLAWRLPKMLEREWRAQAREILDLPAEPGGPTYNLMHPNSCCPHCNQPIRPW
ENIPVLSYLLLRGRCAHCRDPIGLRYPLTELACALISTAVAWHFGFGWQAGAVMLLSWGLLGMSLIDLDHQLLPDVLVLP
LLWLGLILNSADLLTPLPDAVWGAVIGYMSLWCLFWLFKLATGKDGMGHGDFKLLALLGAWGGWQILPMTLLMASLLGVF
AGLILLRLRKAQVSAPMPFGPCLAIAGWIALLWGGQITDFYLQSVGFR

Nucleotide


Download         Length: 867 bp        

>NTDB_id=245608 CLM72_RS04055 WP_105225695.1 902248..903114(-) (pilD) [Pseudomonas sp. MYb193]
TTGAGCCTGCTGCTGAGCGAACATCCCTGGGCGTTTGTTGGCCTGGCGCTGGTGTTGGGCCTGATCGTCGGCAGCTTCCT
CAATGTGCTGGCGTGGCGCCTGCCCAAAATGCTCGAGCGGGAATGGCGTGCCCAGGCCCGTGAGATTCTCGACTTGCCAG
CCGAGCCCGGTGGGCCGACCTATAACCTGATGCACCCGAACTCCTGCTGCCCGCACTGCAATCAACCGATTCGGCCTTGG
GAAAATATCCCGGTGCTCAGCTACCTGCTGCTCCGGGGGCGTTGTGCCCACTGCCGCGACCCCATCGGCCTGCGTTACCC
CCTCACCGAACTCGCGTGCGCGCTGATCTCAACCGCTGTCGCCTGGCACTTCGGCTTCGGCTGGCAAGCCGGCGCGGTGA
TGCTGTTGAGTTGGGGCTTGCTGGGCATGAGCCTGATTGATCTGGACCACCAACTGCTGCCGGATGTGCTGGTGCTGCCG
CTGCTATGGCTGGGGCTGATCCTCAACAGTGCTGACCTGCTGACGCCACTGCCCGATGCAGTGTGGGGCGCGGTCATCGG
CTACATGAGCTTGTGGTGCCTGTTCTGGCTGTTCAAGCTGGCCACCGGCAAAGACGGTATGGGCCATGGCGACTTCAAGT
TATTGGCCTTGCTGGGAGCCTGGGGCGGCTGGCAGATTCTGCCGATGACCCTGCTGATGGCCTCGCTGCTGGGCGTGTTT
GCCGGGCTGATCCTGCTGCGTTTGCGTAAGGCCCAAGTGTCAGCGCCAATGCCGTTTGGCCCCTGCCTGGCAATTGCCGG
CTGGATTGCATTGCTCTGGGGTGGTCAAATAACCGACTTCTATTTGCAGTCTGTCGGTTTCAGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(134-243)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-124)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A2S9E2I1

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

53.004

98.264

0.521
  pilD Vibrio campbellii strain DS40M4

50.352

98.611

0.497
  pilD Neisseria gonorrhoeae MS11

50.37

93.75

0.472
  pilD Acinetobacter baumannii D1279779

47.985

94.792

0.455
  pilD Acinetobacter nosocomialis M2

47.253

94.792

0.448

Multiple sequence alignment