Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AB3G31_RS04340 Genome accession   NZ_CP162006
Coordinates   893765..894604 (-) Length   279 a.a.
NCBI ID   WP_367848981.1    Uniprot ID   -
Organism   Rhodoferax sp. WC2427     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 888765..899604
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3G31_RS04310 (AB3G31_04310) argJ 889411..890640 (+) 1230 WP_367848975.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  AB3G31_RS04315 (AB3G31_04315) - 890723..891601 (+) 879 WP_367848976.1 ATP-binding protein -
  AB3G31_RS04320 (AB3G31_04320) - 891598..892065 (+) 468 WP_367848977.1 NUDIX domain-containing protein -
  AB3G31_RS04325 (AB3G31_04325) - 892117..892317 (-) 201 WP_367848978.1 DNA gyrase inhibitor YacG -
  AB3G31_RS04330 (AB3G31_04330) zapD 892375..893130 (-) 756 WP_367848979.1 cell division protein ZapD -
  AB3G31_RS04335 (AB3G31_04335) coaE 893152..893694 (-) 543 WP_367848980.1 dephospho-CoA kinase -
  AB3G31_RS04340 (AB3G31_04340) pilD 893765..894604 (-) 840 WP_367848981.1 A24 family peptidase Machinery gene
  AB3G31_RS04345 (AB3G31_04345) pilC 894613..895830 (-) 1218 WP_367848982.1 type II secretion system F family protein Machinery gene
  AB3G31_RS04350 (AB3G31_04350) pilB 895864..897597 (-) 1734 WP_367848983.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB3G31_RS04355 (AB3G31_04355) - 897638..898630 (-) 993 WP_367848984.1 RluA family pseudouridine synthase -

Sequence

Protein


Download         Length: 279 a.a.        Molecular weight: 30111.58 Da        Isoelectric Point: 6.8269

>NTDB_id=1023447 AB3G31_RS04340 WP_367848981.1 893765..894604(-) (pilD) [Rhodoferax sp. WC2427]
MQWAAALLGGLFGLVLGSFLNVVVYRMPKIMERQWAADHAEMQGTEPDPATAQPFNLLVPHSSCPHCGHAIRWYENIPVA
SYLALRGKCSACRVPISPRYPGVEIATAALFFFCIWTWGPTVTGLAWCGFAAALLSLALIDWDTTLLPDDITLPLLWAGL
VGASLQWTGVPLFAALWGAVAGYLSLWTIYWLFKLLTGKEGMGYGDFKLFAALGAWFGWEALVPMILMASVIGAMVGIAM
KFSSGLREGGYIPFGPFLAGAGLTAMVFGPNAILRFVGL

Nucleotide


Download         Length: 840 bp        

>NTDB_id=1023447 AB3G31_RS04340 WP_367848981.1 893765..894604(-) (pilD) [Rhodoferax sp. WC2427]
ATGCAATGGGCAGCCGCCCTGCTGGGGGGGCTTTTCGGGCTGGTGTTGGGCAGCTTTCTGAATGTGGTGGTCTACCGCAT
GCCCAAGATCATGGAGCGGCAGTGGGCCGCCGACCACGCCGAGATGCAGGGTACCGAACCCGATCCGGCCACCGCCCAGC
CATTCAACCTGCTGGTGCCGCACTCCAGCTGCCCGCACTGTGGCCACGCGATCCGCTGGTATGAAAACATCCCCGTTGCC
AGCTACCTGGCCCTGCGTGGCAAATGCTCGGCCTGCCGCGTGCCCATCAGCCCGCGCTACCCGGGGGTCGAGATCGCCAC
CGCAGCCTTGTTTTTTTTCTGCATCTGGACGTGGGGGCCTACGGTCACCGGCCTGGCCTGGTGCGGTTTTGCAGCGGCCC
TGCTGAGTCTGGCGCTGATCGACTGGGACACTACCCTGCTGCCCGACGACATCACCCTGCCGCTGCTGTGGGCCGGGTTG
GTCGGTGCGTCGCTGCAGTGGACCGGCGTGCCCTTGTTTGCCGCGCTGTGGGGTGCTGTGGCGGGCTACCTGTCGCTGTG
GACGATCTACTGGCTCTTCAAGCTGCTGACCGGCAAGGAAGGCATGGGCTACGGCGACTTCAAGCTGTTTGCCGCGCTGG
GCGCCTGGTTTGGCTGGGAGGCGCTGGTGCCCATGATTTTGATGGCTTCGGTGATCGGTGCCATGGTGGGCATCGCCATG
AAGTTCAGCAGCGGCCTGCGCGAAGGTGGCTACATCCCGTTTGGCCCTTTTCTGGCGGGGGCGGGCCTGACGGCCATGGT
CTTCGGGCCCAATGCCATCCTGCGTTTTGTCGGTTTGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(130-238)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(11-117)


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

49.27

98.208

0.484
  pilD Vibrio campbellii strain DS40M4

46.691

97.491

0.455
  pilD Neisseria gonorrhoeae MS11

47.287

92.473

0.437
  pilD Acinetobacter baumannii D1279779

43.704

96.774

0.423
  pilD Acinetobacter nosocomialis M2

42.963

96.774

0.416

Multiple sequence alignment