Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CPS_RS19940 Genome accession   NC_003910
Coordinates   4687011..4687916 (+) Length   301 a.a.
NCBI ID   WP_011045178.1    Uniprot ID   -
Organism   Colwellia psychrerythraea 34H     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4682011..4692916
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CPS_RS19925 (CPS_4446) - 4682776..4683486 (-) 711 WP_011045175.1 transposase -
  CPS_RS19930 (CPS_4447) pilB 4683825..4685525 (+) 1701 WP_011045176.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CPS_RS19935 (CPS_4448) pilC 4685644..4686903 (+) 1260 WP_011045177.1 type II secretion system F family protein Machinery gene
  CPS_RS19940 (CPS_4449) pilD 4687011..4687916 (+) 906 WP_011045178.1 prepilin peptidase Machinery gene
  CPS_RS19945 (CPS_4450) coaE 4688234..4688842 (+) 609 WP_011045179.1 dephospho-CoA kinase -
  CPS_RS19950 (CPS_4451) zapD 4688903..4689655 (+) 753 WP_011045180.1 cell division protein ZapD -
  CPS_RS19955 (CPS_4452) yacG 4689764..4690000 (+) 237 WP_011045181.1 DNA gyrase inhibitor YacG -
  CPS_RS19960 (CPS_4453) mutT 4690027..4690461 (-) 435 WP_011045182.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 301 a.a.        Molecular weight: 34262.88 Da        Isoelectric Point: 7.6579

>NTDB_id=22024 CPS_RS19940 WP_011045178.1 4687011..4687916(+) (pilD) [Colwellia psychrerythraea 34H]
MLDKFYSLFNHINMLFQELPTFFYITVALISLAIGSFLNVVIYRTPKMMEYTWYHDCREFLADEVANVKAKRLTKITLSK
PDSTCPNCDHKIRFYENIPVLSWLLLKGKCSQCTNNISARYPIIELSTMVLSLIVAQHFGATISTLWVLLLTWCLITLTM
IDFDHMLLPDQITLPLLWLGLLININGTFIPLPDAVIGAAVGYMSLFSVFWLFKVITGKEGMGYGDFKLFAVFGAWIGWQ
LLPILILMASVVGAIVGITLMLFKNHQREQGIPFGPYLAVAGWITLLWGDGIWSWYLQKIL

Nucleotide


Download         Length: 906 bp        

>NTDB_id=22024 CPS_RS19940 WP_011045178.1 4687011..4687916(+) (pilD) [Colwellia psychrerythraea 34H]
TTGTTAGATAAATTTTATTCTCTCTTTAATCACATAAACATGTTATTTCAAGAACTCCCTACCTTCTTCTATATTACGGT
TGCCCTAATTTCATTGGCCATAGGTAGCTTTCTTAATGTTGTCATTTATCGTACCCCTAAAATGATGGAATATACTTGGT
ATCATGACTGCCGAGAGTTTCTAGCCGATGAGGTTGCTAATGTTAAGGCAAAAAGACTTACTAAAATCACCCTATCTAAA
CCTGACTCTACCTGCCCTAACTGTGATCATAAAATTCGATTTTATGAAAACATCCCTGTATTAAGTTGGTTATTACTAAA
GGGGAAGTGTAGCCAGTGCACTAATAATATTTCAGCTCGTTATCCTATAATCGAACTTTCTACCATGGTGCTAAGTCTTA
TTGTTGCTCAACATTTTGGTGCAACAATATCTACATTGTGGGTTTTGTTACTCACTTGGTGTTTGATTACACTTACCATG
ATAGATTTTGATCACATGTTATTACCTGATCAAATTACACTGCCACTTTTATGGTTAGGTTTACTAATAAACATAAATGG
AACTTTTATCCCATTACCCGATGCTGTCATTGGAGCAGCCGTTGGTTACATGAGCCTATTCTCTGTCTTTTGGCTCTTTA
AAGTAATAACAGGTAAAGAGGGCATGGGTTATGGCGACTTTAAATTGTTCGCTGTTTTTGGTGCTTGGATCGGTTGGCAA
TTACTTCCTATTCTAATTTTAATGGCATCAGTTGTTGGCGCAATTGTTGGTATTACTTTAATGTTATTCAAAAACCATCA
AAGAGAGCAAGGCATCCCTTTTGGCCCATATTTAGCAGTAGCTGGTTGGATAACTTTATTATGGGGTGATGGTATTTGGT
CATGGTATTTACAAAAAATTCTTTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(149-258)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(30-139)


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 Acinetobacter baumannii D1279779

54.874

92.027

0.505
  pilD Acinetobacter nosocomialis M2

54.152

92.027

0.498
  pilD Vibrio cholerae strain A1552

50.883

94.02

0.478
  pilD Vibrio campbellii strain DS40M4

49.653

95.681

0.475
  pilD Neisseria gonorrhoeae MS11

45.745

93.688

0.429

Multiple sequence alignment