Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KIM13_RS25175 Genome accession   NZ_CP074898
Coordinates   4959324..4959791 (+) Length   155 a.a.
NCBI ID   WP_000339836.1    Uniprot ID   -
Organism   Escherichia coli strain 2009C_3612     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4954324..4964791
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KIM13_RS25130 (KIM13_24840) rplP 4954434..4954844 (-) 411 WP_000941212.1 50S ribosomal protein L16 -
  KIM13_RS25135 (KIM13_24845) rpsC 4954857..4955558 (-) 702 WP_000529945.1 30S ribosomal protein S3 -
  KIM13_RS25140 (KIM13_24850) rplV 4955576..4955908 (-) 333 WP_000447529.1 50S ribosomal protein L22 -
  KIM13_RS25145 (KIM13_24855) rpsS 4955923..4956201 (-) 279 WP_001138117.1 30S ribosomal protein S19 -
  KIM13_RS25150 (KIM13_24860) rplB 4956218..4957039 (-) 822 WP_000301864.1 50S ribosomal protein L2 -
  KIM13_RS25155 (KIM13_24865) rplW 4957057..4957359 (-) 303 WP_000617544.1 50S ribosomal protein L23 -
  KIM13_RS25160 (KIM13_24870) rplD 4957356..4957961 (-) 606 WP_000424395.1 50S ribosomal protein L4 -
  KIM13_RS25165 (KIM13_24875) rplC 4957972..4958601 (-) 630 WP_000579833.1 50S ribosomal protein L3 -
  KIM13_RS25170 (KIM13_24880) rpsJ 4958634..4958945 (-) 312 WP_001181004.1 30S ribosomal protein S10 -
  KIM13_RS25175 (KIM13_24885) pilD 4959324..4959791 (+) 468 WP_000339836.1 prepilin peptidase Machinery gene
  KIM13_RS25180 (KIM13_24890) bfr 4959788..4960264 (-) 477 WP_000675515.1 bacterioferritin -
  KIM13_RS25185 (KIM13_24895) bfd 4960337..4960531 (-) 195 WP_000289090.1 bacterioferritin-associated ferredoxin -
  KIM13_RS25190 (KIM13_24900) tuf 4960714..4961898 (-) 1185 WP_000031783.1 elongation factor Tu -
  KIM13_RS25195 (KIM13_24905) fusA 4961969..4964083 (-) 2115 WP_000124700.1 elongation factor G -
  KIM13_RS25200 (KIM13_24910) rpsG 4964180..4964650 (-) 471 WP_001138043.1 30S ribosomal protein S7 -

Sequence

Protein


Download         Length: 155 a.a.        Molecular weight: 16951.08 Da        Isoelectric Point: 8.1296

>NTDB_id=494916 KIM13_RS25175 WP_000339836.1 4959324..4959791(+) (pilD) [Escherichia coli strain 2009C_3612]
MDANLPFLILYACLSVLLFLWDAKHGLLPDRFTCPLLWSGLLFSQVCNPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHTWTFLPRLVFLAASFACGAVVVGLLMRGKESLKNPLPFGPFLAAAGFVVGWDSLLAGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=494916 KIM13_RS25175 WP_000339836.1 4959324..4959791(+) (pilD) [Escherichia coli strain 2009C_3612]
ATGGACGCTAACCTTCCCTTTCTGATTTTGTACGCTTGTTTATCTGTCCTACTTTTTTTATGGGATGCAAAGCATGGCTT
GTTACCTGACAGATTTACCTGCCCGTTACTCTGGTCAGGTCTTTTGTTCTCTCAGGTTTGTAATCCTGACGGTTTAGCCG
ATGCGTTATGGGGGGCGATTATTGGTTACGGCACATTCGCTGTCATTTACTGGGGGTATCGCATACTGCGTCATAAAGAA
GGATTAGGCTATGGTGATGTGAAGTTTCTCGCCGCCCTTGGTGCCTGGCATACCTGGACCTTCTTGCCACGACTGGTTTT
CCTTGCTGCCTCATTCGCTTGCGGAGCCGTAGTTGTTGGTCTGCTCATGAGAGGAAAAGAGTCATTAAAAAACCCGCTGC
CGTTTGGGCCATTTCTGGCGGCTGCGGGTTTCGTTGTAGGTTGGGATAGTTTGCTAGCAGGCCGTTAA

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