Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NCTC9997_RS01975 Genome accession   NZ_LT575468
Coordinates   419583..420419 (-) Length   278 a.a.
NCBI ID   WP_230405846.1    Uniprot ID   -
Organism   Plesiomonas shigelloides strain NCTC10360     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 414583..425419
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NCTC9997_RS01955 (BAY29_RS01950) mutT 416948..417382 (+) 435 WP_010862610.1 8-oxo-dGTP diphosphatase MutT -
  NCTC9997_RS01960 (BAY29_RS01955) yacG 417463..417654 (-) 192 WP_039046505.1 DNA gyrase inhibitor YacG -
  NCTC9997_RS01965 (BAY29_RS01960) zapD 417839..418591 (-) 753 WP_064977165.1 cell division protein ZapD -
  NCTC9997_RS01970 (BAY29_RS01965) coaE 418973..419581 (-) 609 WP_064977166.1 dephospho-CoA kinase -
  NCTC9997_RS01975 (BAY29_RS01970) pilD 419583..420419 (-) 837 WP_230405846.1 prepilin peptidase Machinery gene
  NCTC9997_RS01980 (BAY29_RS01975) - 420707..421747 (+) 1041 WP_010862605.1 GMP reductase -
  NCTC9997_RS01985 (BAY29_RS01980) - 421946..422500 (+) 555 WP_064977167.1 YbhB/YbcL family Raf kinase inhibitor-like protein -
  NCTC9997_RS01990 (BAY29_RS01985) - 422574..423809 (-) 1236 WP_064977168.1 type II secretion system F family protein -
  NCTC9997_RS01995 (BAY29_RS01990) pilB 423811..425316 (-) 1506 WP_064977169.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 278 a.a.        Molecular weight: 30840.69 Da        Isoelectric Point: 7.1043

>NTDB_id=1143879 NCTC9997_RS01975 WP_230405846.1 419583..420419(-) (pilD) [Plesiomonas shigelloides strain NCTC10360]
MDGTLLIAFAALFGLLIGSFLNVVIYRYPLMLERRWHLECAEQFPELTPPADAPRFDLILPGSHCPHCQHPVRWFDNLPV
LSWLVLRGHCRHCQAPISKRYPAIELLTALVFALPVALWGLQIWSVACALFGAVLITASMIDLDRMWLPDSLTQPLLWAG
LLLAWGGYSPLSLHDAVLGAAVGYLSLWSLFWMFKLLTGKEGMGRGDFVLMAALCAWSGPTQLLLIALLASVCGLVYAVI
ARKTQQAIPFGPWLALGGWISLLFSDTIYAHYFALMGY

Nucleotide


Download         Length: 837 bp        

>NTDB_id=1143879 NCTC9997_RS01975 WP_230405846.1 419583..420419(-) (pilD) [Plesiomonas shigelloides strain NCTC10360]
TTGGACGGAACCCTGCTCATTGCCTTTGCGGCGCTCTTTGGCTTGCTGATCGGCAGCTTTCTCAATGTCGTGATCTACCG
CTATCCACTGATGTTGGAGCGGCGCTGGCACCTTGAATGTGCCGAACAATTCCCCGAACTCACTCCTCCGGCCGATGCAC
CGCGCTTTGATTTGATCCTGCCTGGCTCTCACTGCCCACACTGCCAACATCCGGTGCGCTGGTTTGATAACCTGCCCGTG
CTGTCGTGGTTGGTACTGCGTGGTCATTGCCGCCATTGTCAGGCCCCAATCAGTAAACGCTATCCAGCCATTGAACTGCT
CACCGCGCTGGTTTTTGCTCTGCCTGTCGCGCTGTGGGGGTTACAGATTTGGAGCGTCGCATGCGCCTTGTTTGGTGCGG
TGCTGATCACCGCCAGCATGATTGACTTAGATAGAATGTGGTTGCCCGACAGCCTCACCCAACCGCTATTATGGGCCGGT
TTATTACTGGCATGGGGCGGTTACTCGCCGTTATCCCTGCATGATGCGGTATTGGGCGCCGCGGTGGGCTATTTGAGCCT
ATGGAGCCTGTTTTGGATGTTCAAATTGCTGACCGGCAAAGAAGGCATGGGGCGCGGTGATTTTGTCTTGATGGCCGCAC
TCTGCGCTTGGAGTGGCCCGACCCAACTGCTGCTGATTGCCCTGCTCGCCTCGGTGTGTGGGCTGGTATATGCCGTGATT
GCGCGTAAGACGCAGCAGGCTATCCCATTTGGCCCATGGCTGGCCTTGGGTGGCTGGATCAGCCTGCTGTTTAGTGACAC
CATATACGCTCACTATTTTGCACTGATGGGATATTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(12-115)

Type IV leader peptidase family (Peptidase_A24)

(131-238)


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

55.515

97.842

0.543
  pilD Vibrio campbellii strain DS40M4

50.909

98.921

0.504
  pilD Acinetobacter baumannii D1279779

46.182

98.921

0.457
  pilD Acinetobacter nosocomialis M2

45.091

98.921

0.446
  pilD Neisseria gonorrhoeae MS11

44.528

95.324

0.424

Multiple sequence alignment