NTDB

Overview

Name	pilD	Type	Machinery gene
Locus tag	N5980_RS01640	Genome accession	NZ_CP104651
Coordinates	352538..353398 (-)	Length	286 a.a.
NCBI ID	WP_175966281.1	Uniprot ID	-
Organism	Acinetobacter variabilis strain 2021CK-01005
Function	assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 347538..358398

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
N5980_RS01615 (N5980_01615)	recN	347615..349276 (-)	1662	WP_175966287.1	DNA repair protein RecN	-
N5980_RS01620 (N5980_01620)	-	349714..350037 (+)	324	WP_004787221.1	pyrimidine/purine nucleoside phosphorylase	-
N5980_RS01625 (N5980_01625)	rlmB	350180..350929 (+)	750	WP_175966285.1	23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB	-
N5980_RS01630 (N5980_01630)	-	350975..351892 (+)	918	WP_175966283.1	DMT family transporter	-
N5980_RS01635 (N5980_01635)	coaE	351931..352536 (-)	606	WP_175966282.1	dephospho-CoA kinase	-
N5980_RS01640 (N5980_01640)	pilD	352538..353398 (-)	861	WP_175966281.1	prepilin peptidase	Machinery gene
N5980_RS01645 (N5980_01645)	pilC	353398..354627 (-)	1230	WP_004787210.1	type II secretion system F family protein	Machinery gene
N5980_RS01650 (N5980_01650)	pilB	354658..356367 (-)	1710	WP_175966280.1	type IV-A pilus assembly ATPase PilB	Machinery gene
N5980_RS01655 (N5980_01655)	tpiA	356647..357438 (+)	792	WP_175966279.1	triose-phosphate isomerase	-
N5980_RS01660 (N5980_01660)	secG	357452..357781 (+)	330	WP_004787204.1	preprotein translocase subunit SecG	-

Sequence

Protein

Download Length: 286 a.a. Molecular weight: 32112.39 Da Isoelectric Point: 8.0503

                                >NTDB_id=731232 N5980_RS01640 WP_175966281.1 352538..353398(-) (pilD) [Acinetobacter variabilis strain 2021CK-01005]

MQDFILYFSQNPTALYLAVGLFSLCIGSFLNVVIYRTPKMMEQEWRTDCQLFLHPDQPIIDESKITLSKPASTCPKCQTP

IRWYQNIPVISWILLRGKCGNCQNPISIRYPFIELLTAVCALIVVATFGPTIQMLFGLVFTYVLIALTFIDFDTQLLPDR

YTLPLAALGLGINSYAIYTTPSSAIWGYIIGFLCLWVVYYLFKLVTGKEGMGYGDFKLLAALGAWMGPMLLPLIVLLSSL

VGAIIGIILLKVRKENQPFAFGPYIAIAGWIAFLWGEQIMKIYLGQ

Nucleotide

Download Length: 861 bp

                                >NTDB_id=731232 N5980_RS01640 WP_175966281.1 352538..353398(-) (pilD) [Acinetobacter variabilis strain 2021CK-01005]

ATGCAAGATTTTATTTTATATTTCAGTCAAAACCCAACTGCGCTTTATCTCGCAGTTGGGCTTTTTAGTCTCTGTATTGG

TAGCTTTTTAAACGTTGTCATTTACCGCACCCCTAAAATGATGGAACAGGAGTGGCGTACAGATTGCCAGCTGTTTTTGC

ATCCAGATCAGCCCATTATTGATGAAAGCAAAATTACTTTAAGCAAGCCAGCTTCAACCTGCCCGAAATGTCAGACTCCT

ATTCGCTGGTATCAAAATATTCCAGTGATTAGCTGGATCTTATTACGCGGTAAATGTGGCAACTGTCAGAATCCAATCAG

TATTCGCTATCCATTTATCGAACTTCTCACAGCTGTTTGTGCATTAATAGTGGTAGCAACATTCGGGCCTACAATACAGA

TGCTGTTTGGTTTGGTTTTTACCTATGTCTTGATTGCCCTCACCTTTATTGATTTCGACACCCAGTTATTACCTGATCGC

TATACCCTGCCGCTGGCTGCACTCGGCCTGGGTATTAATAGTTATGCGATTTATACTACCCCTAGTTCTGCCATCTGGGG

CTATATCATTGGCTTCTTATGCTTATGGGTAGTGTATTATCTATTTAAGCTGGTGACCGGCAAGGAAGGTATGGGCTATG

GAGATTTCAAACTGTTAGCGGCCCTAGGTGCCTGGATGGGGCCTATGCTCCTACCACTCATTGTATTATTGTCATCATTA

GTGGGTGCGATTATTGGGATTATCCTGCTTAAAGTCCGTAAAGAAAATCAGCCCTTTGCCTTTGGCCCTTATATTGCCAT

TGCCGGCTGGATTGCCTTTTTATGGGGTGAGCAGATCATGAAAATTTATTTAGGTCAGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-128)

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 (%)	H_a-value
pilD	Acinetobacter baumannii D1279779	81.053	99.65	0.808
pilD	Acinetobacter nosocomialis M2	80.702	99.65	0.804
pilD	Vibrio cholerae strain A1552	55.263	93.007	0.514
pilD	Vibrio campbellii strain DS40M4	52.688	97.552	0.514
pilD	Neisseria gonorrhoeae MS11	47.985	95.455	0.458

Detailed information NTG0731232