NTDB

Overview

Name	pilD	Type	Machinery gene
Locus tag	V4939_RS04680	Genome accession	NZ_CP144733
Coordinates	983048..983917 (-)	Length	289 a.a.
NCBI ID	WP_012699852.1	Uniprot ID	M9Y9L4
Organism	Azotobacter vinelandii DJ
Function	assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 978048..988917

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
V4939_RS04645 (V4939_04645)	-	978562..979860 (-)	1299	WP_338460372.1	NAD(P)/FAD-dependent oxidoreductase	-
V4939_RS04650 (V4939_04650)	-	979925..980098 (-)	174	WP_012699847.1	DUF3094 domain-containing protein	-
V4939_RS04655 (V4939_04655)	-	980403..980828 (+)	426	WP_012699848.1	GNAT family N-acetyltransferase	-
V4939_RS04660 (V4939_04660)	-	980825..981292 (+)	468	WP_012699849.1	hypothetical protein	-
V4939_RS04665 (V4939_04665)	-	981289..981975 (+)	687	WP_012699850.1	energy-coupling factor ABC transporter permease	-
V4939_RS04670 (V4939_04670)	yacG	982081..982281 (-)	201	WP_041806982.1	DNA gyrase inhibitor YacG	-
V4939_RS04675 (V4939_04675)	coaE	982278..982886 (-)	609	WP_012699851.1	dephospho-CoA kinase	-
V4939_RS04680 (V4939_04680)	pilD	983048..983917 (-)	870	WP_012699852.1	A24 family peptidase	Machinery gene
V4939_RS04685 (V4939_04685)	pilC	983920..985137 (-)	1218	WP_012699853.1	type II secretion system F family protein	Machinery gene
V4939_RS04690 (V4939_04690)	pilB	985362..987062 (-)	1701	WP_012699854.1	type IV-A pilus assembly ATPase PilB	Machinery gene
V4939_RS04695 (V4939_04695)	-	987591..988088 (+)	498	WP_012699856.1	pilin	-

Sequence

Protein

Download Length: 289 a.a. Molecular weight: 31650.64 Da Isoelectric Point: 6.9531

                                >NTDB_id=934656 V4939_RS04680 WP_012699852.1 983048..983917(-) (pilD) [Azotobacter vinelandii DJ]

MSIVDLLAGPGLAFAVFAGLLGLLVGSFLNVVVHRLPKMMLHDWQAQAREVLELPNEPPGEPFNLLLPHSHCPHCGHAIR

PWENIPLLSWLLLGGRCSACKARIGARYPLVELTCGLLSAHVAWHYGFGWQAGAMLLLGWALLAMSLIDYDHQLLPDSLV

LPLLWLGLILNSFSLFVSLEDALWGAVTGYLSLWSVYWLFKLFTGKEGMGYGDFKLLAMLGAWGGWQILPLTVLLSSLVG

AMLGIVILRLRKAESGTPIPFGPFLAFAGWIALLWGEQITAGYLRFAGL

Nucleotide

Download Length: 870 bp

                                >NTDB_id=934656 V4939_RS04680 WP_012699852.1 983048..983917(-) (pilD) [Azotobacter vinelandii DJ]

ATGTCCATCGTCGATCTTCTGGCCGGCCCCGGACTGGCCTTCGCCGTTTTCGCGGGGCTGCTGGGCCTGCTGGTCGGCAG

CTTTCTCAACGTGGTCGTCCACCGCCTGCCGAAGATGATGCTGCACGACTGGCAGGCACAGGCGCGGGAAGTGCTGGAAC

TGCCCAACGAGCCTCCCGGCGAGCCTTTCAATCTGCTGCTGCCCCACTCCCATTGCCCACATTGCGGGCACGCGATCAGG

CCCTGGGAGAACATCCCCCTGCTCAGCTGGCTGCTCCTGGGTGGCCGCTGCTCGGCCTGCAAGGCCCGGATCGGCGCGCG

CTACCCCCTGGTGGAGCTGACCTGCGGGCTGCTTTCGGCCCATGTCGCCTGGCATTACGGCTTCGGCTGGCAAGCCGGCG

CCATGTTGTTGCTCGGCTGGGCTCTGCTGGCCATGAGCCTGATCGACTACGATCATCAACTGCTGCCGGATTCGCTGGTG

CTGCCGCTGCTCTGGCTGGGCCTGATCCTCAACAGCTTCAGTCTGTTCGTTTCCCTGGAGGACGCCCTCTGGGGCGCGGT

GACCGGCTACCTCAGCCTGTGGTCGGTGTACTGGCTGTTCAAGCTGTTCACCGGCAAGGAAGGCATGGGCTACGGCGACT

TCAAGCTGCTGGCGATGCTCGGCGCCTGGGGTGGCTGGCAGATCCTGCCGCTGACCGTACTGCTCTCCTCGCTGGTCGGC

GCCATGCTGGGGATCGTCATCCTGCGCCTGCGCAAGGCCGAAAGCGGCACGCCGATCCCCTTCGGTCCCTTTCTCGCCTT

CGCCGGCTGGATCGCCCTGCTCTGGGGCGAGCAGATCACCGCCGGCTACCTGCGCTTCGCCGGTCTGTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Secondary structure

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

3D structure

Source	ID	Structure
AlphaFold DB	M9Y9L4

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	Vibrio cholerae strain A1552	56.934	94.81	0.54
pilD	Vibrio campbellii strain DS40M4	53.114	94.464	0.502
pilD	Acinetobacter nosocomialis M2	50	94.81	0.474
pilD	Acinetobacter baumannii D1279779	50	94.81	0.474
pilD	Neisseria gonorrhoeae MS11	48.134	92.734	0.446

Detailed information NTG0934656