NTDB

Overview

Name	pilD	Type	Machinery gene
Locus tag	I3K84_RS09065	Genome accession	NZ_CP065406
Coordinates	1898459..1899340 (+)	Length	293 a.a.
NCBI ID	WP_196995944.1	Uniprot ID	-
Organism	Diaphorobacter sp. JS3051
Function	assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 1893459..1904340

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
I3K84_RS09050 (I3K84_09050)	-	1894037..1895128 (-)	1092	WP_196995943.1	site-specific integrase	-
I3K84_RS09055 (I3K84_09055)	pilB	1895489..1897222 (+)	1734	WP_012655751.1	type IV-A pilus assembly ATPase PilB	Machinery gene
I3K84_RS09060 (I3K84_09060)	pilC	1897242..1898459 (+)	1218	WP_088887536.1	type II secretion system F family protein	Machinery gene
I3K84_RS09065 (I3K84_09065)	pilD	1898459..1899340 (+)	882	WP_196995944.1	A24 family peptidase	Machinery gene
I3K84_RS09070 (I3K84_09070)	coaE	1899372..1899965 (+)	594	WP_231403448.1	dephospho-CoA kinase	-
I3K84_RS09075 (I3K84_09075)	zapD	1900056..1900811 (+)	756	WP_011804250.1	cell division protein ZapD	-
I3K84_RS09080 (I3K84_09080)	-	1900818..1901048 (+)	231	WP_011804249.1	DNA gyrase inhibitor YacG	-
I3K84_RS09085 (I3K84_09085)	-	1901117..1901563 (-)	447	WP_011804248.1	NUDIX domain-containing protein	-
I3K84_RS09090 (I3K84_09090)	-	1901560..1902438 (-)	879	WP_011804247.1	ATP-binding protein	-
I3K84_RS09095 (I3K84_09095)	argJ	1902493..1903722 (-)	1230	WP_103737797.1	bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ	-

Sequence

Protein

Download Length: 293 a.a. Molecular weight: 31471.14 Da Isoelectric Point: 8.0709

                                >NTDB_id=509208 I3K84_RS09065 WP_196995944.1 1898459..1899340(+) (pilD) [Diaphorobacter sp. JS3051]

MTGSLAVDAVLVGVLGMLIGSFLNVVIHRLPRMMERQWAAECRQYGQDVGLLSSAAPPETDNEPLSLSKPRSRCPSCGHA

IRWYENIPVLSYLALRGRCAGCGTRISPRYPLVELATGALFYACALRWGWSLTTAAWCGFSAALVTLACIDWDTTLLPDD

ITLPLLWAGLLAAVLRWIEVQPVDAVIGAAAGYLSLWSVYWGFKLATGKEGMGYGDFKLFAALGAWFGWQALVPIILLAS

VIGAIVGIAMKLASTLREGKYVPFGPFLVGGGMAAMLWGPGRIMQAVFSVLGL

Nucleotide

Download Length: 882 bp

                                >NTDB_id=509208 I3K84_RS09065 WP_196995944.1 1898459..1899340(+) (pilD) [Diaphorobacter sp. JS3051]

ATGACAGGCTCGCTAGCAGTGGACGCCGTGCTGGTGGGCGTCCTGGGGATGCTGATCGGAAGCTTTCTCAACGTCGTGAT

CCATCGCCTTCCGCGCATGATGGAACGGCAATGGGCCGCAGAATGCCGGCAGTACGGGCAGGATGTAGGGCTGCTTTCCT

CGGCAGCGCCTCCTGAGACCGACAACGAGCCCCTCAGCCTGTCCAAGCCGCGTTCACGCTGCCCCTCCTGCGGCCACGCG

ATCCGCTGGTACGAGAACATTCCGGTCCTGAGCTATTTAGCCCTGCGAGGCCGGTGCGCGGGTTGCGGCACGCGCATCAG

CCCCCGGTATCCGCTGGTAGAGCTGGCGACGGGTGCCTTGTTCTATGCATGCGCGCTCCGCTGGGGCTGGAGCCTCACGA

CCGCCGCGTGGTGCGGTTTCTCGGCCGCGCTGGTCACGCTGGCATGCATCGACTGGGACACCACGCTTCTACCCGACGAC

ATCACGTTGCCGTTGCTGTGGGCGGGCCTGCTTGCGGCCGTCTTGCGCTGGATTGAAGTGCAGCCCGTGGATGCCGTCAT

CGGCGCCGCGGCGGGCTACCTGTCCCTCTGGTCCGTGTACTGGGGGTTCAAGCTGGCCACAGGCAAGGAAGGCATGGGCT

ATGGCGACTTCAAACTGTTTGCCGCGCTGGGCGCCTGGTTTGGCTGGCAGGCGCTCGTGCCGATCATTCTGCTGGCCTCG

GTCATCGGCGCCATCGTCGGTATCGCCATGAAGCTGGCCAGCACCCTGCGCGAAGGCAAGTACGTCCCCTTCGGCCCGTT

CCTGGTGGGAGGAGGCATGGCCGCCATGCTGTGGGGCCCCGGGCGCATCATGCAGGCCGTCTTTTCCGTGCTGGGGCTCT

AA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(142-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(14-127)

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	Vibrio cholerae strain A1552	51.46	93.515	0.481
pilD	Vibrio campbellii strain DS40M4	48.252	97.611	0.471
pilD	Neisseria gonorrhoeae MS11	47.547	90.444	0.43
pilD	Acinetobacter nosocomialis M2	45.255	93.515	0.423
pilD	Acinetobacter baumannii D1279779	44.891	93.515	0.42

Detailed information NTG0509208