Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FJ709_RS01460 Genome accession   NZ_CP041216
Coordinates   346235..347164 (-) Length   309 a.a.
NCBI ID   WP_226412763.1    Uniprot ID   -
Organism   Shewanella glacialimarina strain TZS-4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 341235..352164
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FJ709_RS01440 (FJ709_01440) mutT 344153..344551 (-) 399 WP_226412755.1 8-oxo-dGTP diphosphatase MutT -
  FJ709_RS01445 (FJ709_01445) yacG 344582..344809 (-) 228 WP_226412757.1 DNA gyrase inhibitor YacG -
  FJ709_RS01450 (FJ709_01450) zapD 344863..345597 (-) 735 WP_226412759.1 cell division protein ZapD -
  FJ709_RS01455 (FJ709_01455) coaE 345590..346207 (-) 618 WP_226412761.1 dephospho-CoA kinase -
  FJ709_RS01460 (FJ709_01460) pilD 346235..347164 (-) 930 WP_226412763.1 A24 family peptidase Machinery gene
  FJ709_RS01465 (FJ709_01465) pilC 347215..348483 (-) 1269 WP_226412765.1 type II secretion system F family protein Machinery gene
  FJ709_RS01470 (FJ709_01470) pilB 348581..350293 (-) 1713 WP_226412767.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FJ709_RS01475 (FJ709_01475) - 350382..350801 (-) 420 WP_319002888.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 309 a.a.        Molecular weight: 34363.99 Da        Isoelectric Point: 8.0291

>NTDB_id=370602 FJ709_RS01460 WP_226412763.1 346235..347164(-) (pilD) [Shewanella glacialimarina strain TZS-4]
MTEFISTFTTIMHQYPWAFVAISFIFAATIGSFLNVVIHRLPVMMKREWQSECNFYLTEYHPDIVQQVGEKRLTKPIDEF
PVKYNLIVPGSACPKCKANIKPWHNLPVLGWLILKGQCASCKTAISARYPVMELITGVMVATLAFYFGPTTQFLFAAILT
FFLVALTGIDLDEMLLPDQLTLPLLWLGLLINLQGVFTSSSDALLGAAAGYLSLWSVFWLFKLATGKEGMGYGDFKLMAV
FGAWLGWQILPLIILLSSLVGAIVGITMIATKKLHAGKPIPFGPYIALAGWIALIWGQDIINWYLSTLI

Nucleotide


Download         Length: 930 bp        

>NTDB_id=370602 FJ709_RS01460 WP_226412763.1 346235..347164(-) (pilD) [Shewanella glacialimarina strain TZS-4]
ATGACTGAATTTATTTCAACTTTTACCACCATCATGCACCAATACCCTTGGGCATTTGTGGCAATTAGCTTTATCTTTGC
CGCCACCATTGGCAGCTTTCTTAATGTGGTTATCCACCGTTTACCGGTTATGATGAAGCGTGAATGGCAAAGTGAATGTA
ATTTTTACTTAACCGAATATCATCCTGATATCGTCCAGCAAGTCGGTGAAAAACGCTTAACTAAACCGATAGATGAGTTC
CCAGTAAAATATAACCTTATAGTGCCAGGTTCAGCTTGTCCAAAATGTAAGGCTAATATCAAGCCTTGGCATAATTTACC
CGTTTTAGGTTGGTTAATCTTAAAAGGCCAGTGCGCCAGCTGTAAGACCGCTATTTCAGCTCGTTACCCTGTGATGGAAT
TGATTACCGGCGTAATGGTGGCCACTTTAGCGTTTTATTTTGGCCCTACAACTCAATTTCTGTTTGCCGCAATACTGACG
TTCTTTCTAGTGGCGTTAACCGGCATTGATTTAGATGAAATGTTATTACCCGATCAACTCACCTTACCCTTACTTTGGTT
AGGGCTGCTGATCAACTTGCAAGGGGTGTTTACCAGTTCTAGCGATGCATTACTTGGCGCAGCTGCAGGATACTTAAGTC
TTTGGTCGGTATTTTGGCTATTTAAGCTAGCCACAGGCAAGGAAGGTATGGGTTATGGTGATTTTAAATTAATGGCGGTA
TTCGGTGCATGGCTAGGTTGGCAAATACTACCATTGATCATTTTATTATCATCCTTAGTAGGGGCTATTGTGGGCATCAC
CATGATAGCGACCAAAAAACTGCATGCAGGTAAACCTATTCCGTTTGGCCCATATATTGCGCTAGCCGGCTGGATAGCCC
TTATTTGGGGCCAAGATATCATTAACTGGTATTTGAGCACGCTTATTTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-146)

Type IV leader peptidase family (Peptidase_A24)

(158-266)


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

50.825

98.058

0.498
  pilD Vibrio campbellii strain DS40M4

49.333

97.087

0.479
  pilD Acinetobacter baumannii D1279779

47.569

93.204

0.443
  pilD Acinetobacter nosocomialis M2

46.528

93.204

0.434
  pilD Neisseria gonorrhoeae MS11

43.299

94.175

0.408

Multiple sequence alignment