Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SLIT_RS13485 Genome accession   NC_013959
Coordinates   2731806..2732639 (+) Length   277 a.a.
NCBI ID   WP_317623665.1    Uniprot ID   -
Organism   Sideroxydans lithotrophicus ES-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2726806..2737639
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SLIT_RS13470 (Slit_2697) lgt 2728201..2729004 (+) 804 WP_013030820.1 prolipoprotein diacylglyceryl transferase -
  SLIT_RS13475 (Slit_2698) - 2729101..2730393 (+) 1293 WP_013030821.1 HlyC/CorC family transporter -
  SLIT_RS13480 (Slit_2699) pilC 2730498..2731715 (+) 1218 WP_013030822.1 type II secretion system F family protein Machinery gene
  SLIT_RS13485 (Slit_2700) pilD 2731806..2732639 (+) 834 WP_317623665.1 A24 family peptidase Machinery gene
  SLIT_RS13490 (Slit_2701) coaE 2732636..2733247 (+) 612 WP_013030824.1 dephospho-CoA kinase -
  SLIT_RS13495 (Slit_2702) zapD 2733309..2734067 (+) 759 WP_013030825.1 cell division protein ZapD -
  SLIT_RS13500 (Slit_2703) - 2734064..2734249 (+) 186 WP_013030826.1 DNA gyrase inhibitor YacG -
  SLIT_RS13505 (Slit_2704) - 2734237..2735175 (-) 939 WP_013030827.1 Nudix family hydrolase -
  SLIT_RS13510 (Slit_2705) - 2735162..2736025 (-) 864 WP_013030828.1 ATP-binding protein -
  SLIT_RS13515 (Slit_2706) argJ 2736063..2737280 (-) 1218 WP_013030829.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 277 a.a.        Molecular weight: 29925.53 Da        Isoelectric Point: 7.7074

>NTDB_id=36748 SLIT_RS13485 WP_317623665.1 2731806..2732639(+) (pilD) [Sideroxydans lithotrophicus ES-1]
MVFALFAGIIGLLVGSFLNVVIHRLPKMMERDWRAQCAELNEQPEENVSRYNLLVPRSACPHCGHAIGATENIPILSYLL
LRGKCKGCGAAISPRYPIVEAISAILSAYAAWHFGFGMAGIAAIVFVWALIALTFIDFDTQLLPDDITLPLLWLGLLLNL
NGAFTSLQNAVVGATLGYLALWGVYWLFKLTTGKEGMGYGDFKLLATIGAWLGWTMLPLVILLSSLVGAAVGISLIVFAK
HGRHIPIPFGPYLAGGGLIALFWGQALTQSYLQLLAP

Nucleotide


Download         Length: 834 bp        

>NTDB_id=36748 SLIT_RS13485 WP_317623665.1 2731806..2732639(+) (pilD) [Sideroxydans lithotrophicus ES-1]
ATGGTTTTTGCCTTATTCGCCGGCATCATTGGATTGCTTGTAGGCAGTTTTCTCAACGTCGTCATCCATCGCCTGCCCAA
GATGATGGAACGTGACTGGCGCGCGCAATGCGCGGAGCTCAATGAGCAACCGGAGGAAAACGTTTCGCGCTACAACCTGC
TGGTGCCGCGCTCTGCTTGTCCGCATTGCGGCCACGCCATCGGTGCCACCGAAAATATACCGATACTGAGCTACCTGCTC
CTGCGCGGCAAATGCAAAGGGTGCGGTGCCGCCATCTCTCCCCGCTATCCCATTGTCGAGGCGATCAGCGCGATCCTGAG
CGCCTATGCCGCCTGGCATTTCGGCTTCGGCATGGCCGGGATCGCCGCCATCGTTTTCGTCTGGGCACTGATCGCACTCA
CCTTCATCGACTTCGATACACAGCTGCTGCCGGACGACATCACGTTGCCGCTGCTATGGCTGGGCCTGCTGCTCAATCTC
AATGGTGCTTTCACTTCGCTGCAGAATGCCGTCGTCGGTGCAACCCTGGGCTACCTCGCCTTGTGGGGCGTGTACTGGCT
GTTCAAGCTTACTACCGGCAAGGAAGGCATGGGCTATGGAGATTTCAAGCTGCTTGCCACCATAGGTGCATGGCTGGGCT
GGACGATGCTGCCGCTGGTCATCCTGTTGTCCTCGCTGGTCGGTGCCGCGGTCGGCATCTCTCTCATCGTCTTCGCCAAA
CATGGCCGCCACATCCCGATCCCCTTCGGCCCTTACCTTGCTGGCGGCGGCCTGATCGCGCTGTTCTGGGGGCAGGCATT
GACCCAAAGCTATCTGCAACTGCTGGCTCCGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(124-233)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(9-114)


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

54.348

99.639

0.542
  pilD Vibrio campbellii strain DS40M4

53.791

100

0.538
  pilD Acinetobacter baumannii D1279779

50

96.751

0.484
  pilD Acinetobacter nosocomialis M2

49.254

96.751

0.477
  pilD Neisseria gonorrhoeae MS11

50.781

92.419

0.469

Multiple sequence alignment