Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   K5M76_RS01920 Genome accession   NZ_CP091833
Coordinates   439804..440730 (-) Length   308 a.a.
NCBI ID   WP_259476014.1    Uniprot ID   -
Organism   Shewanella xiamenensis strain HD6452     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 434804..445730
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5M76_RS01890 (K5M76_01890) - 435837..436763 (+) 927 WP_037413637.1 exopolyphosphatase -
  K5M76_RS01895 (K5M76_01895) - 436838..437374 (-) 537 WP_011070769.1 thioredoxin family protein -
  K5M76_RS01900 (K5M76_01900) mutT 437518..437913 (-) 396 WP_259476012.1 8-oxo-dGTP diphosphatase MutT -
  K5M76_RS01905 (K5M76_01905) yacG 438000..438209 (-) 210 WP_037413634.1 DNA gyrase inhibitor YacG -
  K5M76_RS01910 (K5M76_01910) zapD 438319..439053 (-) 735 WP_037413632.1 cell division protein ZapD -
  K5M76_RS01915 (K5M76_01915) coaE 439046..439663 (-) 618 WP_144375700.1 dephospho-CoA kinase -
  K5M76_RS01920 (K5M76_01920) pilD 439804..440730 (-) 927 WP_259476014.1 A24 family peptidase Machinery gene
  K5M76_RS01925 (K5M76_01925) pilC 440885..442156 (-) 1272 WP_188871158.1 type II secretion system F family protein Machinery gene
  K5M76_RS01930 (K5M76_01930) pilB 442276..443985 (-) 1710 WP_055648721.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 308 a.a.        Molecular weight: 34354.93 Da        Isoelectric Point: 7.6808

>NTDB_id=653794 K5M76_RS01920 WP_259476014.1 439804..440730(-) (pilD) [Shewanella xiamenensis strain HD6452]
MTEFFTLLGHTFDQAPSLFICLSFVFAATIGSFLNVVIHRFPVMMKREWQQECNQYLQEYHADIVKQVGIEKLNKPIDHY
PPKYNLVVPGSACPKCKTAIKPWHNLPMLGWLMLRGKCAACNASISVRYPMIELITGLLVATLAWHFGPSGQFIFAAILT
FVLIALTGIDLDEMLLPDQMTLPLLWLGLLINLNHTFTNPTDAIIGAAVGYLSLWSIFWLFKLLTGKEGMGYGDFKLLAV
FGAWLGWQMLPLVILLSSLVGALVGITLIVTKRNQLANPIPFGPYIAAAGWIALIWGQPIVDWYLSTL

Nucleotide


Download         Length: 927 bp        

>NTDB_id=653794 K5M76_RS01920 WP_259476014.1 439804..440730(-) (pilD) [Shewanella xiamenensis strain HD6452]
ATGACTGAATTTTTCACTTTATTGGGTCACACCTTTGACCAAGCACCTTCGCTTTTTATCTGCTTAAGTTTTGTGTTTGC
CGCCACTATTGGTAGTTTTTTAAATGTGGTTATTCATCGTTTTCCGGTGATGATGAAGCGCGAATGGCAACAGGAATGCA
ATCAGTATCTGCAGGAGTATCATGCAGATATTGTTAAGCAAGTAGGAATAGAAAAGCTCAATAAACCGATCGATCACTAT
CCTCCCAAATACAATCTTGTGGTACCTGGCTCTGCTTGCCCTAAATGTAAAACCGCCATCAAGCCTTGGCATAATTTACC
GATGTTAGGCTGGTTAATGCTGCGAGGGAAATGCGCCGCCTGCAACGCATCAATCTCCGTCCGTTACCCAATGATTGAAT
TGATAACCGGTTTACTCGTTGCCACATTGGCTTGGCATTTTGGCCCCAGCGGGCAATTTATATTTGCTGCAATACTCACT
TTTGTGTTGATTGCGCTCACCGGAATCGATCTGGATGAAATGCTGTTACCCGATCAGATGACCCTTCCCCTGCTATGGTT
AGGACTACTCATTAACCTCAACCATACCTTTACCAACCCAACCGATGCGATTATTGGTGCCGCAGTAGGCTATTTAAGTT
TATGGTCGATTTTTTGGCTATTTAAGCTGTTAACCGGTAAAGAAGGCATGGGCTATGGTGACTTTAAACTGCTTGCCGTA
TTTGGTGCTTGGCTTGGTTGGCAAATGTTGCCACTGGTGATTTTACTTTCATCCTTAGTGGGTGCCCTCGTAGGCATCAC
GCTGATCGTGACCAAACGTAATCAACTGGCAAATCCGATTCCCTTTGGTCCTTACATTGCCGCCGCAGGTTGGATCGCCC
TAATATGGGGTCAACCTATTGTGGATTGGTATTTAAGTACATTATAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(158-266)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-147)


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

51.689

96.104

0.497
  pilD Vibrio campbellii strain DS40M4

48.344

98.052

0.474
  pilD Acinetobacter nosocomialis M2

47.841

97.727

0.468
  pilD Acinetobacter baumannii D1279779

47.508

97.727

0.464
  pilD Neisseria gonorrhoeae MS11

44.983

93.831

0.422