Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ABX298_RS13960 Genome accession   NZ_CP160798
Coordinates   3135446..3136312 (-) Length   288 a.a.
NCBI ID   WP_286100996.1    Uniprot ID   -
Organism   Pseudomonas sp. X4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3130446..3141312
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABX298_RS13930 (ABX298_13930) - 3131332..3132627 (-) 1296 WP_025337608.1 NAD(P)/FAD-dependent oxidoreductase -
  ABX298_RS13935 (ABX298_13935) - 3132712..3132885 (-) 174 WP_013970765.1 DUF3094 family protein -
  ABX298_RS13940 (ABX298_13940) - 3133019..3133648 (-) 630 WP_013970766.1 DUF1780 domain-containing protein -
  ABX298_RS13945 (ABX298_13945) - 3133782..3134489 (+) 708 WP_286100995.1 energy-coupling factor ABC transporter permease -
  ABX298_RS13950 (ABX298_13950) yacG 3134626..3134826 (-) 201 WP_003260624.1 DNA gyrase inhibitor YacG -
  ABX298_RS13955 (ABX298_13955) coaE 3134823..3135446 (-) 624 WP_075043664.1 dephospho-CoA kinase -
  ABX298_RS13960 (ABX298_13960) pilD 3135446..3136312 (-) 867 WP_286100996.1 A24 family peptidase Machinery gene
  ABX298_RS13965 (ABX298_13965) - 3136315..3137523 (-) 1209 WP_286100997.1 type II secretion system F family protein -
  ABX298_RS13970 (ABX298_13970) - 3137740..3138150 (+) 411 WP_075043667.1 pilin -
  ABX298_RS13980 (ABX298_13980) - 3139176..3140045 (-) 870 WP_286100998.1 LysR family transcriptional regulator -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 32089.25 Da        Isoelectric Point: 7.6378

>NTDB_id=1022082 ABX298_RS13960 WP_286100996.1 3135446..3136312(-) (pilD) [Pseudomonas sp. X4]
MTLWTLLAEQPAYFLTLATVLGLVVGSFLNVLVYRLPIMLERQWQREAQEMLELPITPHERFDLWLPASRCPHCEHRIRA
WENIPVISYLALRGRCSACKTRISPRYPLVEVASALLSLVVAWRFGASPEALLALPLTWCLLALSLIDAEHQLLPDALVL
PMLWLGLIVNAFGLYIPLTSALWGAVAGYLSLWTVYWVFKLVTGKEGMGYGDFKLMALIGAWGGWQVLPLTLLLSSVVGA
LAGLCLLRLRRHAMGTAIPFGPYLAIAGWIAVLWGDEIYASYTQLLGF

Nucleotide


Download         Length: 867 bp        

>NTDB_id=1022082 ABX298_RS13960 WP_286100996.1 3135446..3136312(-) (pilD) [Pseudomonas sp. X4]
ATGACTTTATGGACTTTGCTGGCTGAGCAGCCGGCGTACTTTCTCACCCTGGCCACGGTGCTGGGCCTAGTGGTGGGCAG
TTTTCTCAATGTGCTGGTTTACCGACTGCCGATCATGCTGGAGCGGCAATGGCAGCGTGAGGCGCAGGAAATGCTGGAAT
TGCCGATCACGCCGCACGAGCGTTTCGACCTGTGGCTACCTGCCTCGCGCTGCCCGCATTGCGAGCATCGAATTCGCGCG
TGGGAGAACATTCCGGTCATCAGCTACCTGGCCTTGCGCGGGCGTTGTTCAGCCTGCAAAACCCGCATCAGCCCGCGCTA
CCCGTTGGTGGAGGTGGCCAGCGCGCTGCTGTCGCTGGTGGTGGCCTGGCGCTTTGGTGCTTCGCCCGAGGCCTTGCTGG
CGCTGCCGCTGACCTGGTGCCTGCTGGCCCTGAGCCTGATCGATGCCGAGCACCAGTTGCTGCCGGATGCGCTGGTGCTG
CCGATGCTGTGGCTGGGGCTGATCGTCAACGCCTTCGGCCTCTATATCCCGCTGACCAGCGCGCTGTGGGGCGCGGTGGC
CGGGTACCTCAGCCTTTGGACGGTGTACTGGGTGTTCAAGCTGGTTACCGGCAAGGAGGGCATGGGCTATGGCGACTTCA
AGCTGATGGCGCTGATCGGGGCCTGGGGTGGCTGGCAGGTGTTGCCGTTGACCTTGCTGTTGTCGTCGGTGGTCGGGGCG
CTGGCTGGGCTGTGTCTGCTGCGTCTGCGCCGCCATGCCATGGGTACGGCGATCCCGTTCGGCCCCTATCTGGCGATTGC
GGGGTGGATTGCCGTGCTCTGGGGTGATGAAATATACGCTTCATACACACAACTGCTTGGATTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(137-244)


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

54.182

95.486

0.517
  pilD Acinetobacter baumannii D1279779

52.143

97.222

0.507
  pilD Acinetobacter nosocomialis M2

51.429

97.222

0.5
  pilD Vibrio campbellii strain DS40M4

49.822

97.569

0.486
  pilD Neisseria gonorrhoeae MS11

50.566

92.014

0.465

Multiple sequence alignment