Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   LDN84_RS21425 Genome accession   NZ_AP024238
Coordinates   4643803..4644939 (-) Length   378 a.a.
NCBI ID   WP_223905767.1    Uniprot ID   -
Organism   Rhodoferax lithotrophicus strain MIZ03     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4638803..4649939
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDN84_RS21395 (MIZ03_4512) - 4639138..4639992 (+) 855 WP_223905755.1 M48 family metallopeptidase -
  LDN84_RS21400 (MIZ03_4513) rsmI 4640020..4640961 (-) 942 WP_223905757.1 16S rRNA (cytidine(1402)-2'-O)-methyltransferase -
  LDN84_RS21405 (MIZ03_4514) - 4640964..4641356 (+) 393 WP_223905759.1 YraN family protein -
  LDN84_RS21410 (MIZ03_4515) - 4641444..4642043 (+) 600 WP_223905761.1 phosphoheptose isomerase -
  LDN84_RS21415 (MIZ03_4516) - 4642040..4642705 (+) 666 WP_223905763.1 BON domain-containing protein -
  LDN84_RS21420 (MIZ03_4517) - 4642838..4643755 (-) 918 WP_223905765.1 NAD(P)-dependent oxidoreductase -
  LDN84_RS21425 (MIZ03_4518) pilU 4643803..4644939 (-) 1137 WP_223905767.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  LDN84_RS21430 (MIZ03_4519) pilT 4644954..4645997 (-) 1044 WP_223905769.1 type IV pilus twitching motility protein PilT Machinery gene
  LDN84_RS21435 (MIZ03_4520) - 4646061..4646753 (+) 693 WP_223905771.1 YggS family pyridoxal phosphate-dependent enzyme -
  LDN84_RS21440 (MIZ03_4521) - 4646768..4647229 (-) 462 WP_223905773.1 Lrp/AsnC ligand binding domain-containing protein -
  LDN84_RS21445 (MIZ03_4522) - 4647233..4649812 (-) 2580 WP_223905775.1 EAL domain-containing protein -

Sequence

Protein


Download         Length: 378 a.a.        Molecular weight: 41872.38 Da        Isoelectric Point: 7.4181

>NTDB_id=84231 LDN84_RS21425 WP_223905767.1 4643803..4644939(-) (pilU) [Rhodoferax lithotrophicus strain MIZ03]
MERDQATTFITDLLKLMLGRGGSDLFITAEFPPAIKVDGKVTKVSPQPLNSTHTIALARSIMNDKQVAEFERTKECNFAI
APPGLGRFRVNAFMQQSKVGMVLRTIPSTLPTIDGLKLPPVLKEVVNSKRGLCIMVGATGSGKSTSLAALVDWRNESTFG
HIITIEDPIEFVHAHKNCVVTQREVGIDTDSWGAALKNTLRQAPDVILMGEIRDRETMEHAVSFAETGHMCLATLHANSA
NQALDRIINFFPEERRAQLLMDLSLNLRALVSQRLLPKQDGKGRVAMVEIMLNSPLISDLIFKGEVAEIKEVMKKSRNMG
MQTFDQALFDAYEANLITYEDALRNADSVNDLRLQIKLNSQRSKRQDLAAGTENLTIV

Nucleotide


Download         Length: 1137 bp        

>NTDB_id=84231 LDN84_RS21425 WP_223905767.1 4643803..4644939(-) (pilU) [Rhodoferax lithotrophicus strain MIZ03]
ATGGAACGCGATCAAGCCACGACTTTTATCACCGACCTGCTCAAGCTGATGCTTGGGCGCGGCGGCAGCGACCTGTTCAT
CACCGCAGAGTTCCCGCCCGCCATCAAGGTGGATGGCAAGGTGACCAAAGTGTCGCCCCAGCCGCTCAACAGTACCCACA
CCATCGCCCTGGCCCGCTCGATCATGAACGACAAGCAGGTGGCCGAATTCGAGCGCACCAAGGAATGCAACTTTGCCATT
GCTCCCCCTGGTCTGGGGCGTTTTCGTGTGAATGCCTTCATGCAACAGAGCAAAGTGGGCATGGTGCTGCGAACCATTCC
AAGCACGTTGCCGACCATTGACGGCTTGAAATTGCCGCCCGTGCTGAAAGAGGTGGTGAACAGCAAACGCGGGTTGTGCA
TCATGGTGGGGGCCACCGGTTCGGGCAAGTCGACTTCTTTGGCTGCCTTGGTGGACTGGCGTAATGAGTCCACCTTTGGT
CACATCATCACCATTGAAGACCCGATTGAATTTGTCCACGCCCACAAAAATTGCGTCGTTACCCAGCGCGAAGTGGGTAT
TGACACCGACAGCTGGGGCGCAGCACTGAAAAACACCTTGCGCCAGGCCCCCGATGTGATTTTGATGGGCGAGATTCGTG
ACCGCGAAACCATGGAGCATGCCGTGTCTTTTGCCGAGACCGGCCACATGTGTCTGGCCACGTTACATGCCAACAGTGCC
AATCAGGCGCTGGACCGTATCATCAACTTCTTTCCCGAAGAGCGCCGGGCGCAATTGTTGATGGATTTGTCGCTGAACTT
GCGGGCGCTGGTGTCGCAACGGTTGCTGCCGAAACAGGATGGCAAAGGGCGGGTGGCGATGGTTGAAATCATGCTCAACT
CACCCCTGATTTCAGATCTGATCTTCAAGGGTGAAGTGGCTGAAATCAAGGAAGTCATGAAAAAAAGCCGCAACATGGGC
ATGCAGACCTTTGACCAGGCGCTGTTTGATGCCTATGAGGCCAACCTGATCACCTATGAAGATGCCCTGCGCAACGCCGA
CTCCGTGAACGATTTACGCCTGCAAATCAAGCTCAACAGCCAGCGCAGCAAACGCCAGGATCTGGCCGCTGGTACCGAAA
ACCTGACCATCGTGTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(120-256)


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
  pilU Pseudomonas stutzeri DSM 10701

61.096

96.561

0.59
  pilU Acinetobacter baylyi ADP1

57.143

94.444

0.54
  pilU Vibrio cholerae strain A1552

53.959

90.212

0.487
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

45.697

89.153

0.407
  pilT Pseudomonas aeruginosa PAK

45.104

89.153

0.402
  pilT Legionella pneumophila strain Lp02

45.045

88.095

0.397
  pilT Legionella pneumophila strain ERS1305867

45.045

88.095

0.397
  pilT Pseudomonas stutzeri DSM 10701

43.62

89.153

0.389
  pilT Acinetobacter nosocomialis M2

44.828

84.392

0.378
  pilT Acinetobacter baumannii D1279779

44.828

84.392

0.378
  pilT Acinetobacter baumannii strain A118

44.828

84.392

0.378
  pilT Acinetobacter baylyi ADP1

44.201

84.392

0.373
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

43.849

83.862

0.368
  pilT Vibrio cholerae strain A1552

43.849

83.862

0.368

Multiple sequence alignment