NTDB

Overview

Name	pilD	Type	Machinery gene
Locus tag	V5G02_RS08560	Genome accession	NZ_CP145026
Coordinates	1642875..1643735 (+)	Length	286 a.a.
NCBI ID	WP_003689814.1	Uniprot ID	A0AA44U9R8
Organism	Neisseria gonorrhoeae strain WHO_S2_2024
Function	assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 1637875..1648735

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
V5G02_RS08545 (V5G02_08555)	dapD	1638385..1639206 (-)	822	WP_003689804.1	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase	-
V5G02_RS08550 (V5G02_08560)	pgi	1639416..1641059 (-)	1644	WP_003689806.1	glucose-6-phosphate isomerase	-
V5G02_RS08555 (V5G02_08565)	pilG	1641569..1642801 (+)	1233	WP_003689811.1	type 4 pilus assembly protein PilG	Machinery gene
V5G02_RS08560 (V5G02_08570)	pilD	1642875..1643735 (+)	861	WP_003689814.1	A24 family peptidase	Machinery gene
V5G02_RS08565 (V5G02_08575)	coaE	1643732..1644364 (+)	633	WP_003689816.1	dephospho-CoA kinase	-
V5G02_RS08570 (V5G02_08580)	-	1644357..1644566 (+)	210	WP_003696096.1	DNA gyrase inhibitor YacG	-
V5G02_RS08575 (V5G02_08585)	pilF	1644652..1646328 (-)	1677	WP_003689817.1	type IV-A pilus assembly ATPase PilB	Machinery gene
V5G02_RS08585 (V5G02_08595)	-	1646666..1647112 (-)	447	WP_003689818.1	DUF441 domain-containing protein	-
V5G02_RS08590 (V5G02_08600)	-	1647116..1648090 (-)	975	WP_003689819.1	polyprenyl synthetase family protein	-
V5G02_RS08595 (V5G02_08605)	rplU	1648314..1648622 (+)	309	WP_003691838.1	50S ribosomal protein L21	-

Sequence

Protein

Download Length: 286 a.a. Molecular weight: 31332.34 Da Isoelectric Point: 8.9561

                                >NTDB_id=936086 V5G02_RS08560 WP_003689814.1 1642875..1643735(+) (pilD) [Neisseria gonorrhoeae strain WHO_S2_2024]

MSDLSVLSPFAVPLAAVLGLLVGSFLNVVIYRVPVMMERGWTVFAKEHLNLPLTDDESRTFNLMKPDSCCPKCRVPIRAW

QNIPIVSYLLLRGKCASCQTKISIRYPLIELLTGVLFGLVAWQYGWSWITLGGLILTAFLISLTFIDADTQYLPDSMTLP

LIWLGLIFNLDGGFVPLQSAVLGAVAGYSSLWLLCAVYKLLTGKTGMGNGDFKLIAALGAWLGISALPVLIFVSSLIGLV

AAIVMRVAKGRHFAFGPALTVSGWIIFTANDSVWRAVNWWLTHPVR

Nucleotide

Download Length: 861 bp

                                >NTDB_id=936086 V5G02_RS08560 WP_003689814.1 1642875..1643735(+) (pilD) [Neisseria gonorrhoeae strain WHO_S2_2024]

ATGTCTGATTTGTCTGTATTGTCGCCGTTTGCCGTGCCTTTGGCAGCAGTTTTGGGGCTGCTGGTCGGCAGCTTCCTGAA

TGTCGTCATTTACCGCGTACCCGTTATGATGGAACGCGGCTGGACGGTATTTGCCAAAGAACATTTAAACCTGCCGCTGA

CCGACGATGAAAGCCGTACCTTCAACCTGATGAAGCCGGATTCCTGCTGTCCCAAATGCCGTGTGCCGATACGCGCGTGG

CAGAACATCCCGATTGTCAGTTACCTGCTCCTGCGCGGCAAATGCGCTTCCTGCCAAACCAAAATCAGCATACGTTATCC

CTTAATCGAGCTGCTGACCGGCGTATTGTTCGGGCTGGTCGCCTGGCAATACGGCTGGTCTTGGATTACGCTGGGCGGTT

TGATACTGACCGCGTTTCTGATTTCCCTGACCTTTATCGATGCGGACACCCAATACCTGCCCGACTCGATGACATTACCC

TTGATCTGGCTGGGGCTGATATTTAATTTGGACGGCGGCTTCGTGCCTTTGCAGTCTGCCGTTTTAGGTGCGGTTGCCGG

CTATAGTTCATTATGGCTCTTATGTGCAGTGTATAAACTGCTCACAGGAAAAACCGGTATGGGCAACGGAGATTTCAAAC

TGATTGCCGCATTGGGCGCGTGGCTCGGCATATCCGCATTGCCCGTGCTGATTTTTGTTTCCTCTCTGATCGGTTTGGTC

GCGGCAATCGTTATGCGCGTCGCCAAGGGGCGGCATTTTGCCTTCGGCCCCGCACTGACAGTTTCGGGCTGGATAATTTT

TACGGCAAACGATTCCGTATGGCGGGCGGTCAACTGGTGGCTGACCCATCCGGTGAGATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(134-242)

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	Neisseria gonorrhoeae MS11	100	100	1
pilD	Vibrio cholerae strain A1552	44.792	100	0.451
pilD	Vibrio campbellii strain DS40M4	45.652	96.503	0.441
pilD	Acinetobacter baumannii D1279779	47.727	92.308	0.441
pilD	Acinetobacter nosocomialis M2	47.727	92.308	0.441

Detailed information NTG0936086