Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SO_RS02000 Genome accession   NC_004347
Coordinates   428993..429919 (-) Length   308 a.a.
NCBI ID   WP_011070774.1    Uniprot ID   Q8EJP8
Organism   Shewanella oneidensis MR-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 423993..434919
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SO_RS01970 (SO_0408) - 425050..425970 (+) 921 WP_011070768.1 exopolyphosphatase -
  SO_RS01975 (SO_0409) - 426070..426606 (-) 537 WP_011070769.1 thioredoxin family protein -
  SO_RS01980 (SO_0410) mutT 426745..427137 (-) 393 WP_011070770.1 8-oxo-dGTP diphosphatase MutT -
  SO_RS01985 (SO_0411) yacG 427225..427434 (-) 210 WP_011070771.1 DNA gyrase inhibitor YacG -
  SO_RS01990 (SO_0412) zapD 427495..428229 (-) 735 WP_011070772.1 cell division protein ZapD -
  SO_RS01995 (SO_0413) coaE 428222..428839 (-) 618 WP_011070773.1 dephospho-CoA kinase -
  SO_RS02000 (SO_0414) pilD 428993..429919 (-) 927 WP_011070774.1 prepilin peptidase Machinery gene
  SO_RS02005 (SO_0415) pilC 430085..431356 (-) 1272 WP_011070775.1 type II secretion system F family protein Machinery gene
  SO_RS02010 (SO_0416) pilB 431608..433317 (-) 1710 WP_011070776.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SO_RS02015 (SO_0417) - 433391..433807 (-) 417 WP_011070777.1 pilin -

Sequence

Protein


Download         Length: 308 a.a.        Molecular weight: 34389.91 Da        Isoelectric Point: 7.7258

>NTDB_id=22392 SO_RS02000 WP_011070774.1 428993..429919(-) (pilD) [Shewanella oneidensis MR-1]
MTEFFTLLGHTFDQAPWLFISLSFVFAATIGSFLNVVIHRFPVMMKREWQQECNQYLQEYHADIVKQVGIDKLSKAIDHY
PPKYNLVVPGSACPKCKTAIKPWHNLPMLGWLMLRGKCAACSAPISARYPIIELITGLLVATLAWHFGPSWQFVFAAILT
FVLIALTGIDLDEMLLPDQMTLPLLWLGLLINLNHTFTSPADAMIGAAAGYLSLWSIFWLFKLLTGKEGMGYGDFKLLAV
FGAWLGWQMLPLVILLSSLVGAFVGITLIVTKRNQLANPIPFGPYIAAAGWIALIWGQPIVDWYLSTL

Nucleotide


Download         Length: 927 bp        

>NTDB_id=22392 SO_RS02000 WP_011070774.1 428993..429919(-) (pilD) [Shewanella oneidensis MR-1]
ATGACTGAATTTTTCACTTTATTGGGTCACACCTTTGACCAAGCACCATGGCTTTTTATCTCATTAAGTTTTGTGTTTGC
GGCCACCATTGGCAGCTTTTTAAATGTGGTGATTCACCGTTTTCCGGTGATGATGAAACGCGAATGGCAGCAGGAATGTA
ATCAGTATTTGCAGGAATATCATGCCGATATTGTTAAGCAAGTGGGTATCGATAAGCTCAGTAAAGCGATAGATCACTAT
CCTCCAAAATACAATCTCGTGGTGCCAGGCTCCGCTTGCCCTAAATGTAAAACCGCCATCAAACCTTGGCATAATTTACC
GATGTTAGGCTGGTTAATGTTGCGAGGAAAATGCGCCGCCTGTAGCGCGCCAATCTCAGCCCGTTACCCCATTATTGAAT
TAATAACCGGTTTACTGGTTGCGACATTGGCTTGGCATTTTGGCCCAAGCTGGCAATTTGTGTTTGCTGCAATCCTCACT
TTTGTGTTGATTGCGCTGACGGGAATCGATCTGGATGAAATGCTGTTACCCGATCAGATGACCCTTCCCCTGCTGTGGTT
AGGGCTACTCATCAACCTAAACCATACCTTTACCAGCCCAGCCGATGCGATGATTGGTGCGGCAGCTGGCTATTTAAGTT
TGTGGTCGATTTTTTGGCTGTTTAAGCTGTTAACTGGCAAAGAGGGCATGGGTTATGGTGACTTTAAACTACTCGCCGTA
TTTGGTGCTTGGCTAGGCTGGCAAATGTTGCCGCTGGTCATTTTACTTTCATCCTTGGTTGGCGCCTTCGTTGGCATCAC
GCTGATCGTGACCAAGCGTAATCAGCTTGCTAACCCGATTCCCTTTGGTCCTTACATTGCCGCCGCAGGCTGGATCGCCC
TAATATGGGGCCAACCTATAGTGGATTGGTATTTAAGTACGTTATAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-147)

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
  AlphaFold DB Q8EJP8

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

53.041

96.104

0.51
  pilD Vibrio campbellii strain DS40M4

50

98.052

0.49
  pilD Acinetobacter nosocomialis M2

49.827

93.831

0.468
  pilD Acinetobacter baumannii D1279779

49.481

93.831

0.464
  pilD Neisseria gonorrhoeae MS11

44.483

94.156

0.419

Multiple sequence alignment