Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JNN34_RS02040 Genome accession   NZ_CP068803
Coordinates   448171..448638 (-) Length   155 a.a.
NCBI ID   WP_000340171.1    Uniprot ID   -
Organism   Escherichia coli strain RIVM_C018404     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 443171..453638
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNN34_RS02015 (JNN34_02015) rpsG 443312..443782 (+) 471 WP_001138043.1 30S ribosomal protein S7 -
  JNN34_RS02020 (JNN34_02020) fusA 443879..445993 (+) 2115 WP_000124700.1 elongation factor G -
  JNN34_RS02025 (JNN34_02025) tuf 446064..447248 (+) 1185 WP_000031783.1 elongation factor Tu -
  JNN34_RS02030 (JNN34_02030) bfd 447431..447625 (+) 195 WP_086732408.1 bacterioferritin-associated ferredoxin -
  JNN34_RS02035 (JNN34_02035) bfr 447698..448174 (+) 477 WP_000675515.1 bacterioferritin -
  JNN34_RS02040 (JNN34_02040) pilD 448171..448638 (-) 468 WP_000340171.1 A24 family peptidase Machinery gene
  JNN34_RS02045 (JNN34_02045) rpsJ 449017..449328 (+) 312 WP_001181004.1 30S ribosomal protein S10 -
  JNN34_RS02050 (JNN34_02050) rplC 449361..449990 (+) 630 WP_000579833.1 50S ribosomal protein L3 -
  JNN34_RS02055 (JNN34_02055) rplD 450001..450606 (+) 606 WP_000424395.1 50S ribosomal protein L4 -
  JNN34_RS02060 (JNN34_02060) rplW 450603..450905 (+) 303 WP_000617544.1 50S ribosomal protein L23 -
  JNN34_RS02065 (JNN34_02065) rplB 450923..451744 (+) 822 WP_000301864.1 50S ribosomal protein L2 -
  JNN34_RS02070 (JNN34_02070) rpsS 451761..452039 (+) 279 WP_001138117.1 30S ribosomal protein S19 -
  JNN34_RS02075 (JNN34_02075) rplV 452054..452386 (+) 333 WP_000447529.1 50S ribosomal protein L22 -
  JNN34_RS02080 (JNN34_02080) rpsC 452404..453105 (+) 702 WP_000529945.1 30S ribosomal protein S3 -
  JNN34_RS02085 (JNN34_02085) rplP 453118..453528 (+) 411 WP_000941212.1 50S ribosomal protein L16 -

Sequence

Protein


Download         Length: 155 a.a.        Molecular weight: 16938.08 Da        Isoelectric Point: 8.1296

>NTDB_id=461572 JNN34_RS02040 WP_000340171.1 448171..448638(-) (pilD) [Escherichia coli strain RIVM_C018404]
MDATLPFLILYACLSVLLFLWDAKHGLLPDRFTCPLLWSGLLFSQVCNPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHTWTFLPRLVFLAASFACGAVVVGLLMRGKESLKNPLPFGPFLAAAGFVVGWDSLLAGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=461572 JNN34_RS02040 WP_000340171.1 448171..448638(-) (pilD) [Escherichia coli strain RIVM_C018404]
ATGGACGCTACCCTTCCCTTTCTGATTTTGTACGCTTGTTTATCTGTCCTACTTTTTTTATGGGATGCAAAGCATGGCTT
GTTACCTGACAGATTTACCTGCCCGTTACTCTGGTCAGGTCTTTTGTTCTCTCAGGTTTGTAATCCTGACGGTTTAGCCG
ATGCGTTATGGGGGGCGATTATTGGTTACGGCACATTCGCTGTCATTTACTGGGGGTATCGCATACTGCGTCATAAAGAA
GGATTAGGCTATGGTGATGTGAAGTTTCTCGCCGCCCTTGGTGCCTGGCATACCTGGACCTTCTTGCCACGACTGGTTTT
CCTTGCTGCCTCATTCGCTTGCGGAGCCGTAGTTGTTGGTCTGCTCATGAGAGGAAAAGAGTCATTAAAAAACCCGCTGC
CGTTTGGGCCATTTCTGGCGGCTGCGGGTTTCGTTGTAGGTTGGGATAGTTTGCTGGCAGGCCGTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(10-116)


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

44.8

80.645

0.361
  pilD Neisseria gonorrhoeae MS11

38.095

94.839

0.361