Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GM320_RS06075 Genome accession   NZ_CP047422
Coordinates   1190629..1191543 (+) Length   304 a.a.
NCBI ID   WP_144128769.1    Uniprot ID   -
Organism   Shewanella algae strain 18064-CSB-B-B     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1185629..1196543
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GM320_RS06060 (GM320_06060) - 1186967..1187407 (+) 441 WP_159352537.1 pilin -
  GM320_RS06065 (GM320_06065) pilB 1187422..1189128 (+) 1707 WP_159352538.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GM320_RS06070 (GM320_06070) pilC 1189284..1190552 (+) 1269 WP_159352539.1 type II secretion system F family protein Machinery gene
  GM320_RS06075 (GM320_06075) pilD 1190629..1191543 (+) 915 WP_144128769.1 prepilin peptidase Machinery gene
  GM320_RS06080 (GM320_06080) coaE 1191544..1192155 (+) 612 WP_025012056.1 dephospho-CoA kinase -
  GM320_RS06085 (GM320_06085) zapD 1192152..1192892 (+) 741 WP_028779562.1 cell division protein ZapD -
  GM320_RS06090 (GM320_06090) yacG 1192937..1193149 (+) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  GM320_RS06095 (GM320_06095) mutT 1193149..1193547 (+) 399 WP_025012058.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33839.21 Da        Isoelectric Point: 7.2147

>NTDB_id=413448 GM320_RS06075 WP_144128769.1 1190629..1191543(+) (pilD) [Shewanella algae strain 18064-CSB-B-B]
MSEFIAVLSHNQWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLQEYQPEFAKQLGEAKLNAPIDNYPAKY
NLLLPKSACPKCGAHIKPWHNLPIIGYLLLGGKCASCNTAISARYPIFELLTALLISTLGWYFGPTLQFVYATILTFGLI
ALSGIDLDEMLLPDQITLPLLWLGLLVNISGTFTNLTDATIGAAAGYLSLWSVYWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGVLLILFKNLNRGNPIPFGPYIAIAGWVALVWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=413448 GM320_RS06075 WP_144128769.1 1190629..1191543(+) (pilD) [Shewanella algae strain 18064-CSB-B-B]
ATGTCAGAATTTATTGCCGTATTGAGCCACAACCAGTGGCTCTTTCTTGTTCTCTGTTTTTTGTTTGCCTCAGTAATAGG
CAGCTTTCTCAATGTGGTGATCCACCGCCTGCCGGTAATGATGAAGCGCGAATGGCAGCAGGAATGCAATCAATACCTGC
AGGAATATCAACCCGAATTCGCCAAACAGCTGGGTGAAGCCAAGCTTAATGCACCAATAGATAACTATCCGGCCAAATAC
AATCTGTTACTGCCGAAGTCTGCCTGCCCCAAGTGTGGCGCCCATATCAAACCCTGGCACAACCTCCCCATAATCGGCTA
TTTGTTGCTTGGCGGTAAATGCGCCTCCTGCAACACAGCTATTTCAGCAAGATACCCGATATTTGAGCTGCTGACCGCCC
TGCTTATCAGTACTCTCGGTTGGTATTTTGGCCCGACACTGCAGTTTGTTTACGCCACTATTCTCACCTTTGGATTGATA
GCCCTCAGCGGGATAGATTTGGATGAAATGCTGCTGCCGGATCAGATTACCCTGCCGCTACTGTGGCTTGGTTTACTGGT
TAATATCTCAGGCACCTTTACTAATTTGACCGATGCCACCATAGGGGCCGCTGCCGGCTATCTAAGTCTCTGGTCGGTCT
ACTGGCTATTTAAACTGCTCACCGGCAAGGAAGGCATGGGCTATGGCGATTTCAAGCTGATGGCACTGTTTGGCGCCTGG
CTTGGCTGGCAGATGTTACCTCTAATTATTCTGCTCTCTTCTCTGGTCGGTGCCCTAGTAGGCGTTTTACTTATTCTGTT
CAAGAACCTTAATCGGGGTAACCCTATCCCCTTTGGCCCTTATATTGCTATCGCAGGTTGGGTCGCTCTGGTGTGGGGGC
AACAGATTGTCGACTGGTATTTGGGAACACTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)


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 campbellii strain DS40M4

49.169

99.013

0.487
  pilD Vibrio cholerae strain A1552

50

96.053

0.48
  pilD Acinetobacter nosocomialis M2

48.013

99.342

0.477
  pilD Acinetobacter baumannii D1279779

47.682

99.342

0.474
  pilD Neisseria gonorrhoeae MS11

45.196

92.434

0.418

Multiple sequence alignment