Detailed information NTG0125900

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: C798_RS01880
• Genome accession: NZ_CP008956
• Coordinates: 418762..419625 (-)
• Length: 287 a.a.
• NCBI ID: WP_017451952.1
• Uniprot ID: A0A6M3ZNF4
• Organism: Herbaspirillum rubrisubalbicans Os34
• Function: assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 413762..424625

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
C798_RS01850 (C798_01840)	argJ	414348..415583 (+)	1236	WP_017451946.1	bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ	-
C798_RS01855 (C798_01845)	-	415594..416469 (+)	876	WP_017451947.1	ATP-binding protein	-
C798_RS01860 (C798_01850)	-	416469..416882 (+)	414	WP_017451948.1	NUDIX domain-containing protein	-
C798_RS01865 (C798_01855)	yacG	416925..417110 (-)	186	WP_017451949.1	DNA gyrase inhibitor YacG	-
C798_RS01870 (C798_01860)	zapD	417146..417901 (-)	756	WP_017451950.1	cell division protein ZapD	-
C798_RS01875 (C798_01865)	coaE	418128..418748 (-)	621	WP_017451951.1	dephospho-CoA kinase	-
C798_RS01880 (C798_01870)	pilD	418762..419625 (-)	864	WP_017451952.1	prepilin peptidase	Machinery gene
C798_RS01885 (C798_01875)	-	419679..420926 (-)	1248	WP_017451953.1	type II secretion system F family protein	-
C798_RS01890 (C798_01880)	pilF	420913..422049 (-)	1137	WP_017451954.1	GspE/PulE family protein	Machinery gene
C798_RS01895 (C798_01885)	-	422179..423468 (-)	1290	WP_017451955.1	HlyC/CorC family transporter	-
C798_RS01900 (C798_01895)	infA	423963..424226 (+)	264	WP_006713209.1	translation initiation factor IF-1	-
C798_RS01905 (C798_01900)	-	424300..424557 (+)	258	WP_017451957.1	hypothetical protein	-

Sequence

Protein

• Length: 287 a.a.
• Molecular weight: 30992.26 Da
• Isoelectric Point: 7.9511

>NTDB_id=125900 C798_RS01880 WP_017451952.1 418762..419625(-) (pilD) [Herbaspirillum rubrisubalbicans Os34]
MPFLEAYAVSGSPVLSGVAALLGLLVGSFLNVVIHRLPTMMLRESANFVAHERGEALPHTERYNLWLPHSACPHCATPLA
PHHKLPVLSWLLLRGRCAYCSAPISLRYPLVELLCAVLFALLAWRYGLGLTGLALMTGAAFLVALAFIDAQTMLLPDDLT
LPLLWLGLLVNLTHRLVPLQDAVLGAMAGYGVLWLIFWCFKLTTGKEGLGYGDFKLMAALGAWLGWQALPLMLLLASALG
AVLGLALMLGGRHQRGQAIPFGPCLALAGMLALVLGHDWLNLILYAF

Nucleotide

• Length: 864 bp

>NTDB_id=125900 C798_RS01880 WP_017451952.1 418762..419625(-) (pilD) [Herbaspirillum rubrisubalbicans Os34]
ATGCCTTTTCTGGAAGCCTATGCCGTCTCCGGCAGCCCCGTCCTGTCTGGCGTAGCCGCCCTGCTGGGCTTGCTGGTGGG
CAGCTTCCTCAACGTAGTGATCCATCGCCTGCCGACCATGATGCTGCGCGAAAGCGCCAACTTCGTGGCCCACGAACGCG
GCGAGGCGCTGCCCCATACCGAACGCTACAACCTCTGGCTGCCGCACTCGGCCTGCCCGCATTGCGCCACGCCGCTGGCG
CCGCATCACAAGCTGCCGGTCTTGAGCTGGCTGCTGCTGCGCGGACGGTGCGCCTATTGCAGCGCGCCCATCAGCCTGCG
CTATCCCCTGGTGGAACTGCTGTGCGCCGTGCTCTTCGCGCTGCTGGCCTGGCGCTATGGCCTGGGGCTGACCGGCCTGG
CGCTCATGACCGGCGCCGCCTTCCTGGTCGCGCTGGCCTTCATCGATGCCCAGACCATGCTGCTGCCCGACGACCTGACC
CTGCCGCTGTTGTGGCTGGGCTTGCTGGTCAATCTCACGCATCGCCTGGTGCCGCTGCAGGATGCGGTGCTGGGCGCGAT
GGCCGGCTATGGCGTGCTGTGGCTGATCTTCTGGTGCTTCAAGCTGACGACCGGCAAGGAAGGCCTGGGCTATGGCGACT
TCAAGCTGATGGCCGCGCTGGGCGCCTGGCTGGGCTGGCAGGCGCTGCCCCTGATGCTGTTGCTGGCCTCGGCGCTGGGT
GCGGTGCTGGGCCTGGCGCTGATGCTGGGCGGACGGCACCAGCGCGGCCAGGCCATCCCCTTCGGCCCCTGCCTGGCCCT
AGCCGGAATGCTGGCGCTGGTGCTGGGCCACGACTGGCTGAACCTGATTCTCTACGCTTTCTGA

Domains

Predicted by InterproScan.

• Bacterial Peptidase A24 N-terminal domain (A24_N_bact) (21-126)

• Type IV leader peptidase family (Peptidase_A24) (136-245)

3D structure

• AlphaFold DB: A0A6M3ZNF4

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilD	Vibrio cholerae strain A1552	52.239	93.38	0.488
pilD	Vibrio campbellii strain DS40M4	49.627	93.38	0.463
pilD	Neisseria gonorrhoeae MS11	50.385	90.592	0.456
pilD	Acinetobacter baumannii D1279779	40.78	98.258	0.401
pilD	Acinetobacter nosocomialis M2	40.071	98.258	0.394