Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QCD61_RS23530 Genome accession   NZ_CP123771
Coordinates   5390972..5391841 (+) Length   289 a.a.
NCBI ID   WP_135847215.1    Uniprot ID   -
Organism   Pseudomonas viciae strain YsS1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5385972..5396841
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QCD61_RS23505 (QCD61_23505) - 5386092..5386388 (+) 297 WP_256454432.1 DUF2845 domain-containing protein -
  QCD61_RS23510 (QCD61_23510) - 5386700..5387053 (-) 354 WP_135847211.1 BON domain-containing protein -
  QCD61_RS23515 (QCD61_23515) pilA 5387400..5387825 (-) 426 WP_135847212.1 pilin Machinery gene
  QCD61_RS23520 (QCD61_23520) pilB 5388050..5389750 (+) 1701 WP_135847213.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QCD61_RS23525 (QCD61_23525) pilC 5389753..5390970 (+) 1218 WP_135847214.1 type II secretion system F family protein Machinery gene
  QCD61_RS23530 (QCD61_23530) pilD 5390972..5391841 (+) 870 WP_135847215.1 A24 family peptidase Machinery gene
  QCD61_RS23535 (QCD61_23535) coaE 5391853..5392476 (+) 624 WP_135847216.1 dephospho-CoA kinase -
  QCD61_RS23540 (QCD61_23540) yacG 5392473..5392679 (+) 207 WP_135847217.1 DNA gyrase inhibitor YacG -
  QCD61_RS23545 (QCD61_23545) - 5392676..5392891 (-) 216 WP_003185533.1 hypothetical protein -
  QCD61_RS23550 (QCD61_23550) - 5392955..5393641 (-) 687 WP_135847218.1 energy-coupling factor ABC transporter permease -
  QCD61_RS23555 (QCD61_23555) - 5393716..5394129 (-) 414 WP_135847219.1 tautomerase family protein -
  QCD61_RS23560 (QCD61_23560) - 5394347..5395174 (+) 828 WP_256453758.1 LysR substrate-binding domain-containing protein -
  QCD61_RS23565 (QCD61_23565) - 5395243..5395869 (+) 627 WP_003205682.1 DUF1780 domain-containing protein -
  QCD61_RS23570 (QCD61_23570) - 5395866..5396393 (+) 528 WP_135847221.1 MOSC domain-containing protein -
  QCD61_RS23575 (QCD61_23575) - 5396446..5396619 (+) 174 WP_039593877.1 DUF3094 family protein -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31996.14 Da        Isoelectric Point: 7.7093

>NTDB_id=822660 QCD61_RS23530 WP_135847215.1 5390972..5391841(+) (pilD) [Pseudomonas viciae strain YsS1]
MPLTDFFVLYPLAFVLTALLLGLIVGSFLNVLVWRLPKMLTREWRLQAHDLLGLPAEAPGPIYNLMLPHSQCPHCDHRIR
AWENIPLLSYLILRGRCSNCTAPIGKRYPLTELACGALSAFVAWHFGFGWQAAMVMVLSWGLLGMSLIDAEHQLLPDSLV
LPLLWLGLIVNSFGLFVSLNQAMWGAVAGYLTLWSVFWVFKLLTGKEGMGYGDFKLLAMLGAWGGWQILPLTLLLSSLVG
AVIGVIVLRLRDAPGSTQIPFGPYLAIAGWIALLWGGQITDFYWQSVGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=822660 QCD61_RS23530 WP_135847215.1 5390972..5391841(+) (pilD) [Pseudomonas viciae strain YsS1]
ATGCCCCTGACTGACTTCTTCGTGCTGTATCCACTGGCCTTCGTGCTCACTGCGTTATTGCTCGGATTGATCGTCGGCAG
TTTCCTCAATGTCCTGGTGTGGCGCCTGCCAAAGATGCTCACCCGCGAATGGCGCCTGCAAGCCCACGACCTGTTGGGAC
TGCCGGCCGAAGCACCCGGCCCGATCTACAACCTGATGCTGCCCCATTCCCAGTGCCCTCACTGCGACCATCGCATCCGC
GCCTGGGAAAACATCCCATTGTTGAGCTACCTGATATTGCGCGGTCGCTGTTCCAACTGCACCGCCCCCATTGGCAAGCG
TTACCCGCTGACCGAACTGGCCTGCGGCGCCTTGTCAGCGTTCGTCGCCTGGCACTTCGGCTTTGGCTGGCAGGCCGCGA
TGGTGATGGTGTTGAGCTGGGGCCTGCTGGGCATGAGCCTGATCGACGCCGAGCATCAGTTGCTGCCCGATAGTCTGGTA
TTACCGTTGTTGTGGCTGGGCTTGATCGTCAACAGCTTCGGCCTGTTCGTTTCCTTGAACCAGGCGATGTGGGGCGCGGT
GGCCGGCTATCTGACGCTGTGGTCGGTGTTTTGGGTATTCAAGTTGCTCACCGGCAAGGAAGGTATGGGCTACGGGGATT
TCAAGCTGCTGGCGATGCTGGGTGCCTGGGGTGGCTGGCAGATCCTGCCGCTGACCTTGCTGCTGTCGTCGCTGGTGGGC
GCGGTTATCGGAGTCATTGTGCTGCGCCTGCGTGATGCCCCTGGGTCGACGCAGATCCCCTTCGGACCTTATCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTCTGTCGGTTTCTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


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

53.169

98.27

0.522
  pilD Vibrio campbellii strain DS40M4

50.877

98.616

0.502
  pilD Neisseria gonorrhoeae MS11

47.387

99.308

0.471
  pilD Acinetobacter baumannii D1279779

46.996

97.924

0.46
  pilD Acinetobacter nosocomialis M2

46.996

97.924

0.46