Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RE428_RS08770 Genome accession   NZ_AP028878
Coordinates   1944911..1945786 (-) Length   291 a.a.
NCBI ID   WP_004581626.1    Uniprot ID   N6WPB2
Organism   Marinobacter nanhaiticus D15-8W     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1939911..1950786
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RE428_RS08750 (RE428_17820) tsaA 1941926..1942666 (-) 741 WP_004581622.1 tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO -
  RE428_RS08755 (RE428_17830) - 1942663..1943733 (-) 1071 WP_227500224.1 hypothetical protein -
  RE428_RS08760 (RE428_17840) - 1943708..1944160 (-) 453 WP_004581624.1 HIT family protein -
  RE428_RS08765 (RE428_17850) coaE 1944227..1944844 (-) 618 WP_004581625.1 dephospho-CoA kinase -
  RE428_RS08770 (RE428_17860) pilD 1944911..1945786 (-) 876 WP_004581626.1 A24 family peptidase Machinery gene
  RE428_RS08775 (RE428_17870) pilC 1945850..1947067 (-) 1218 WP_004581627.1 type II secretion system F family protein Machinery gene
  RE428_RS08780 (RE428_17880) pilB 1947070..1948785 (-) 1716 WP_004581628.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RE428_RS08785 (RE428_17890) - 1949106..1949576 (+) 471 WP_004581629.1 pilin -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32407.65 Da        Isoelectric Point: 8.1372

>NTDB_id=107255 RE428_RS08770 WP_004581626.1 1944911..1945786(-) (pilD) [Marinobacter nanhaiticus D15-8W]
MPTLQAFLSTSWLLYPAVIVLALCIGSFLNVVILRLPKMMEQDWRCQCEEFLKLPEKQRKKSEKINLSYPNSTCPKCGHE
IKPWENIPVISYLLLRGKCSSCKTSISARYPFIEAATAILSVFTVYLLGATLEGLWALLLVWALIALTVIDFDTQLLPDS
ITLPLLWLGLILNYFGILTDFTSAFWGAIFGYLSLWSVYWLFKLVTGKEGMGHGDFKLLGALGAWLGWQLLPAVILLSSV
VGAVIGLSLIAFKGHGREVPIPFGPYLAIAGLLALWFGPEIQALWFSYLRG

Nucleotide


Download         Length: 876 bp        

>NTDB_id=107255 RE428_RS08770 WP_004581626.1 1944911..1945786(-) (pilD) [Marinobacter nanhaiticus D15-8W]
ATGCCAACTCTTCAAGCATTCTTGAGTACCTCTTGGCTACTCTATCCCGCAGTCATTGTCCTCGCCCTCTGTATAGGCAG
CTTCCTAAACGTAGTCATCCTCCGCCTCCCCAAGATGATGGAGCAGGACTGGCGCTGCCAATGCGAGGAGTTCCTCAAGC
TCCCTGAAAAGCAACGCAAAAAGTCAGAAAAGATCAACCTCTCCTATCCCAATTCCACGTGCCCCAAATGCGGCCACGAG
ATCAAGCCTTGGGAGAACATCCCGGTCATCAGCTATCTGCTCCTCCGCGGTAAATGCAGCTCTTGCAAGACATCAATCTC
GGCACGCTATCCCTTTATCGAGGCTGCGACTGCGATTCTCTCGGTGTTCACGGTTTACCTACTGGGAGCGACACTGGAAG
GTCTCTGGGCGCTGCTCTTGGTCTGGGCTCTGATTGCCCTGACGGTTATCGACTTCGACACTCAATTACTACCAGACAGC
ATCACGCTGCCCCTACTCTGGCTGGGCTTAATTCTTAACTACTTCGGCATTCTGACTGATTTCACCAGCGCCTTCTGGGG
CGCCATATTCGGTTACCTGTCACTCTGGTCCGTCTACTGGCTCTTCAAGCTGGTAACCGGTAAAGAAGGCATGGGGCACG
GGGATTTCAAGCTGCTGGGCGCTCTCGGCGCTTGGCTGGGGTGGCAGTTGCTGCCGGCTGTGATTCTGCTCTCTTCCGTG
GTGGGTGCTGTTATCGGCCTGAGTTTGATCGCCTTTAAAGGCCATGGTCGTGAAGTACCCATTCCTTTCGGCCCTTATCT
CGCCATCGCTGGGCTTTTGGCGTTATGGTTTGGGCCTGAGATCCAGGCACTGTGGTTCAGCTACCTGAGGGGCTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(138-247)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB N6WPB2

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 campbellii strain DS40M4

50.69

99.656

0.505
  pilD Acinetobacter baumannii D1279779

52.688

95.876

0.505
  pilD Acinetobacter nosocomialis M2

52.688

95.876

0.505
  pilD Vibrio cholerae strain A1552

50.35

98.282

0.495
  pilD Neisseria gonorrhoeae MS11

50

87.973

0.44

Multiple sequence alignment