Detailed information    

experimental Experimentally validated

Overview

Name   pilD   Type   Machinery gene
Locus tag   ABD1_RS18470 Genome accession   NC_020547
Coordinates   345329..346189 (-) Length   286 a.a.
NCBI ID   WP_001152280.1    Uniprot ID   -
Organism   Acinetobacter baumannii D1279779     
Function   assembly of type IV pilus   
DNA binding and uptake

Function

We examined the 33 knockout mutants by comparing their transformation efficiency with wild-type W068. No knockout strains were affected in growth, but 28 of these mutants were severely or completely impaired in natural transformability. These mutations were in 18 genes related to T4P (pilF, pilQ, tsaP, pilM, pilN, pilO, pilP, pilB, pilC, pilT, pilD, pilE, pilY2, pilY1, pilX, pilW, pilV, and fimU), six genes related to DNA uptake and processing (comEA, comA, comF, priA, dprA, and recA), two genes related to T2SS (xcpV and xcpW), and the crp and tonB2 genes.


Genomic Context

Location: 340329..351189
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABD1_RS01580 (ABD1_02980) - 341220..342530 (+) 1311 WP_000753285.1 tetratricopeptide repeat protein -
  ABD1_RS01585 (ABD1_02990) - 342607..342933 (+) 327 WP_000099685.1 pyrimidine/purine nucleoside phosphorylase -
  ABD1_RS01590 (ABD1_03000) rlmB 343035..343784 (+) 750 WP_001118149.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  ABD1_RS01595 (ABD1_03010) - 343820..344734 (+) 915 WP_000075010.1 DMT family transporter -
  ABD1_RS01600 (ABD1_03020) coaE 344731..345327 (-) 597 WP_000874125.1 dephospho-CoA kinase -
  ABD1_RS18470 (ABD1_03030) pilD 345329..346189 (-) 861 WP_001152280.1 prepilin peptidase Machinery gene
  ABD1_RS01610 (ABD1_03040) pilC 346189..347415 (-) 1227 WP_000279215.1 type II secretion system F family protein Machinery gene
  ABD1_RS01615 (ABD1_03050) pilB 347445..349157 (-) 1713 WP_001274986.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABD1_RS01620 (ABD1_03060) tpiA 349448..350242 (+) 795 WP_000016939.1 triose-phosphate isomerase -
  ABD1_RS01625 (ABD1_03070) secG 350255..350584 (+) 330 WP_000555570.1 preprotein translocase subunit SecG -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 32111.50 Da        Isoelectric Point: 7.1041

>NTDB_id=1061 ABD1_RS18470 WP_001152280.1 345329..346189(-) (pilD) [Acinetobacter baumannii D1279779]
MQDIIAYFIQNLTALYIAVALVSLCIGSFLNVVIYRTPKMMEQDWQQECQMLLNPEQPIIDHERLTLNKPASSCPACQQP
IRWYQNIPVISWLVLRGKCGHCQHPISIRYPAIELLTMLCSLVVVMVFGPTIQMLFGLVLTWVLIALTFIDFDTQLLPDR
FTLPLAALGLGINTFNIYTSPNSAIWGYLIGFLCLWIVYYLFKVITGKEGMGYGDFKLLAALGAWMGPLMLPLIVLLSSL
LGAIIGIILLKLRNDNQPFAFGPYIAIAGWVAFLWGDQIMKIYLGG

Nucleotide


Download         Length: 861 bp        

>NTDB_id=1061 ABD1_RS18470 WP_001152280.1 345329..346189(-) (pilD) [Acinetobacter baumannii D1279779]
ATGCAAGACATCATTGCGTATTTTATTCAAAACTTAACTGCACTTTATATTGCTGTTGCACTCGTGAGCCTATGTATCGG
TAGCTTTCTTAATGTAGTGATTTACCGCACGCCAAAAATGATGGAACAAGATTGGCAGCAAGAATGCCAAATGCTGCTCA
ATCCCGAGCAACCGATTATTGATCATGAGAGGTTAACTTTAAATAAGCCTGCTTCATCGTGCCCTGCATGTCAGCAACCG
ATCCGTTGGTATCAAAATATTCCTGTTATAAGCTGGCTTGTGTTAAGAGGAAAATGTGGCCATTGCCAACACCCGATTAG
TATTCGCTATCCAGCCATCGAACTACTCACCATGCTATGTTCATTAGTAGTAGTCATGGTATTTGGCCCAACCATACAAA
TGCTTTTTGGACTCGTCCTCACATGGGTACTGATAGCCCTTACTTTTATTGATTTCGATACACAATTATTGCCTGATCGC
TTTACCTTACCTTTAGCTGCGCTCGGCTTAGGTATTAATACCTTTAATATTTATACCTCACCCAACTCAGCCATTTGGGG
TTATCTCATTGGTTTCCTATGTCTTTGGATTGTCTATTACTTATTTAAAGTGATCACTGGCAAAGAAGGTATGGGCTACG
GCGACTTTAAATTGCTTGCAGCATTAGGTGCATGGATGGGGCCATTGATGCTGCCGTTAATTGTGTTATTGTCATCGTTA
CTTGGCGCAATCATTGGCATCATTTTATTAAAATTAAGAAATGACAATCAGCCTTTTGCTTTTGGGCCATATATTGCCAT
TGCTGGTTGGGTTGCCTTTTTATGGGGTGATCAGATTATGAAAATTTATTTGGGAGGTTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-128)


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 nosocomialis M2

98.252

100

0.983
  pilD Vibrio cholerae strain A1552

53.309

95.105

0.507
  pilD Vibrio campbellii strain DS40M4

52.399

94.755

0.497
  pilD Neisseria gonorrhoeae MS11

47.727

92.308

0.441

Multiple sequence alignment    



References

[1] Yuan Hu et al. (2021) Natural Transformation in Acinetobacter baumannii W068: A Genetic Analysis Reveals the Involvements of the CRP, XcpV, XcpW, TsaP, and TonB2. Frontiers in Microbiology 12:738034. [PMID: 35126321]