Detailed information NTG0057129

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: R2APBS1_RS04430
• Genome accession: NC_020541
• Coordinates: 1012736..1013593 (-)
• Length: 285 a.a.
• NCBI ID: WP_015447033.1
• Uniprot ID: M4NDV2
• Organism: Rhodanobacter denitrificans
• Function: assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 1007736..1018593

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
R2APBS1_RS04395 (R2APBS1_0900)	lgt	1007981..1008799 (+)	819	WP_015447028.1	prolipoprotein diacylglyceryl transferase	-
R2APBS1_RS04400 (R2APBS1_0901)	-	1008890..1009903 (-)	1014	WP_015447029.1	TIGR00266 family protein	-
R2APBS1_RS04405 (R2APBS1_0902)	-	1009996..1010790 (+)	795	WP_015447030.1	thymidylate synthase	-
R2APBS1_RS04410 (R2APBS1_0903)	-	1010917..1011405 (+)	489	WP_015447031.1	dihydrofolate reductase	-
R2APBS1_RS04415 (R2APBS1_0904)	-	1011405..1011821 (+)	417	WP_027485879.1	NUDIX domain-containing protein	-
R2APBS1_RS04425 (R2APBS1_0905)	coaE	1012119..1012733 (-)	615	WP_015447032.1	dephospho-CoA kinase	-
R2APBS1_RS04430 (R2APBS1_0906)	pilD	1012736..1013593 (-)	858	WP_015447033.1	A24 family peptidase	Machinery gene
R2APBS1_RS04435 (R2APBS1_0907)	-	1013608..1014027 (-)	420	WP_015447034.1	DUF559 domain-containing protein	-
R2APBS1_RS04440 (R2APBS1_0908)	pilC	1014176..1015447 (-)	1272	WP_015447035.1	type II secretion system F family protein	Machinery gene
R2APBS1_RS04445 (R2APBS1_0909)	pilB	1015590..1017314 (-)	1725	WP_015447036.1	type IV-A pilus assembly ATPase PilB	Machinery gene
R2APBS1_RS04450 (R2APBS1_0910)	-	1017947..1018189 (+)	243	WP_015447037.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	-
R2APBS1_RS04455 (R2APBS1_0911)	-	1018186..1018581 (+)	396	WP_015447038.1	type II toxin-antitoxin system VapC family toxin	-

Sequence

Protein

• Length: 285 a.a.
• Molecular weight: 30895.17 Da
• Isoelectric Point: 8.4957

>NTDB_id=57129 R2APBS1_RS04430 WP_015447033.1 1012736..1013593(-) (pilD) [Rhodanobacter denitrificans]
MPELPLALWIALAGVLGLLVGSFLNVVILRLPARMAAAWRQEAWDVLELQADAVPLPPGIVREPSHCPHCKHPLSALDNI
PLLGWLLLRGRCRYCRAEISIQYPLVELLSGVLSVVIVWKFGPSWAALAGLALTWTLIALSGIDFRTQLLPDQLTLPLLW
LGLLLSLLPMFVTAPASILAAAIGYLSLWSVYWAFKLLTGKEGMGHGDFKLLAALGAWMGPVALLPVILLSSLIGALVGG
TLIALRKHQREIPMPFGPFIAAAGWVWFVAGADLLQGYMQLTGLR

Nucleotide

• Length: 858 bp

>NTDB_id=57129 R2APBS1_RS04430 WP_015447033.1 1012736..1013593(-) (pilD) [Rhodanobacter denitrificans]
ATGCCCGAACTTCCCCTTGCCCTGTGGATCGCCCTGGCCGGTGTGCTCGGCCTGCTGGTGGGCAGCTTTCTCAACGTGGT
GATCCTGCGCCTGCCAGCGCGCATGGCGGCAGCGTGGCGGCAGGAGGCGTGGGATGTGCTGGAGCTCCAGGCTGACGCCG
TGCCGCTGCCGCCGGGCATCGTGCGCGAGCCGTCGCATTGCCCGCACTGCAAGCACCCGTTGTCAGCGCTGGACAACATT
CCGCTGCTTGGCTGGCTGCTGCTGCGCGGGCGCTGCCGCTACTGCCGGGCGGAGATTTCGATCCAGTACCCGTTGGTGGA
ACTGCTCAGCGGCGTGCTGAGCGTGGTGATCGTGTGGAAATTCGGGCCGTCATGGGCGGCGCTGGCGGGGCTGGCGCTGA
CCTGGACGCTGATCGCGCTGTCCGGCATCGACTTCCGCACCCAGTTGTTGCCCGACCAGCTCACCCTGCCGCTGCTGTGG
TTGGGCCTGCTGCTGTCGCTGCTGCCGATGTTCGTCACCGCGCCGGCGTCGATCCTGGCCGCCGCGATCGGCTACCTCAG
CCTGTGGAGCGTGTACTGGGCGTTCAAGCTGCTCACCGGCAAGGAAGGCATGGGCCACGGCGATTTCAAGCTGCTCGCCG
CGTTGGGCGCATGGATGGGGCCGGTGGCGCTGCTGCCGGTCATCCTGCTGTCGTCGCTGATCGGCGCGCTGGTCGGCGGC
ACCCTGATCGCGCTGCGCAAGCATCAGCGCGAGATTCCGATGCCGTTCGGCCCGTTCATCGCCGCCGCCGGCTGGGTCTG
GTTCGTGGCCGGCGCGGACCTGCTGCAGGGTTACATGCAATTGACCGGCCTGCGGTGA

Domains

Predicted by InterproScan.

• Type IV leader peptidase family (Peptidase_A24) (132-239)

• Bacterial Peptidase A24 N-terminal domain (A24_N_bact) (15-121)

3D structure

• AlphaFold DB: M4NDV2

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilD	Vibrio cholerae strain A1552	50.735	95.439	0.484
pilD	Acinetobacter nosocomialis M2	49.27	96.14	0.474
pilD	Acinetobacter baumannii D1279779	48.905	96.14	0.47
pilD	Vibrio campbellii strain DS40M4	48.175	96.14	0.463
pilD	Neisseria gonorrhoeae MS11	48.669	92.281	0.449