NTDB

Overview

Name	pilD	Type	Machinery gene
Locus tag	U1R68_RS06575	Genome accession	NZ_CP140126
Coordinates	1460507..1461352 (+)	Length	281 a.a.
NCBI ID	WP_350238861.1	Uniprot ID	-
Organism	Pectobacterium colocasium strain MT27-1
Function	assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 1455507..1466352

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
U1R68_RS06545 (U1R68_06525)	gspI	1455900..1456265 (+)	366	WP_180741890.1	type II secretion system minor pseudopilin GspI	-
U1R68_RS06550 (U1R68_06530)	gspJ	1456265..1456915 (+)	651	WP_225085311.1	type II secretion system minor pseudopilin GspJ	-
U1R68_RS06555 (U1R68_06535)	gspK	1456912..1457898 (+)	987	WP_225085310.1	type II secretion system minor pseudopilin GspK	-
U1R68_RS06560 (U1R68_06540)	gspL	1457895..1459172 (+)	1278	WP_350238859.1	type II secretion system protein GspL	-
U1R68_RS06565 (U1R68_06545)	-	1459169..1459663 (+)	495	WP_263057742.1	type II secretion system protein M	-
U1R68_RS06570 (U1R68_06550)	-	1459653..1460399 (+)	747	WP_350238860.1	type II secretion system protein N	-
U1R68_RS06575 (U1R68_06555)	pilD	1460507..1461352 (+)	846	WP_350238861.1	A24 family peptidase	Machinery gene
U1R68_RS06580 (U1R68_06560)	-	1461456..1461563 (+)	108	Protein_1264	hypothetical protein	-
U1R68_RS06585 (U1R68_06565)	-	1461667..1461873 (+)	207	WP_225088193.1	YciI family protein	-
U1R68_RS06590 (U1R68_06570)	ypdK	1462093..1462167 (-)	75	WP_099606229.1	membrane protein YpdK	-
U1R68_RS06595 (U1R68_06575)	-	1462526..1463551 (-)	1026	WP_350238862.1	LLM class flavin-dependent oxidoreductase	-
U1R68_RS06600 (U1R68_06580)	-	1463541..1463825 (+)	285	Protein_1268	hypothetical protein	-
U1R68_RS06605 (U1R68_06585)	-	1463822..1464073 (+)	252	Protein_1269	iron chelate uptake ABC transporter family permease subunit	-
U1R68_RS06610 (U1R68_06590)	-	1464073..1464195 (+)	123	WP_284144920.1	iron chelate uptake ABC transporter family permease subunit	-
U1R68_RS06615 (U1R68_06595)	-	1464209..1464322 (+)	114	Protein_1271	ABC transporter ATP-binding protein	-
U1R68_RS06620 (U1R68_06600)	-	1464371..1464583 (+)	213	WP_350239139.1	substrate-binding domain-containing protein	-
U1R68_RS06625 (U1R68_06605)	dbpA	1464702..1466084 (+)	1383	WP_350238863.1	ATP-dependent RNA helicase DbpA	-

Sequence

Protein

Download Length: 281 a.a. Molecular weight: 31330.31 Da Isoelectric Point: 8.0096

                                >NTDB_id=912979 U1R68_RS06575 WP_350238861.1 1460507..1461352(+) (pilD) [Pectobacterium colocasium strain MT27-1]

MDDLREFAQVFPAWWYGALGVLGLIVGSFLNVVIYRLPIMLERRWRQDIELQTGVTDAGQATRYNLWWPPSSCPHCQQAI

AVKDNIPLFSWLWLRGRSRCCHQPVSVQYPLVEVITMLAFLATGLLWLPGMALCGALILLSFLVVLTVIDIKTLLLPDVL

TLSLLWIGLLFNLSETFVSLRDAVVGAMAGYLSLWLLYWVFKYATGKDALGYGDFKLLAALGAWLGWQALPNLVLVAALS

GLIVTLIWRGLRKEDTAKPLAFGPWLAIGGVFSVMMNGFNL

Nucleotide

Download Length: 846 bp

                                >NTDB_id=912979 U1R68_RS06575 WP_350238861.1 1460507..1461352(+) (pilD) [Pectobacterium colocasium strain MT27-1]

GTGGACGATTTAAGGGAATTCGCACAGGTGTTTCCAGCATGGTGGTATGGTGCGCTGGGCGTATTGGGATTGATTGTTGG

CAGCTTTCTGAACGTAGTGATTTATCGCTTGCCGATTATGTTGGAACGGCGCTGGCGGCAAGACATCGAGCTGCAAACCG

GCGTAACGGATGCCGGGCAGGCTACGCGCTATAACCTGTGGTGGCCGCCTTCGTCCTGCCCGCACTGCCAGCAGGCGATT

GCGGTGAAGGATAACATCCCGTTGTTCAGTTGGCTGTGGCTACGCGGTCGCTCCCGCTGCTGTCACCAGCCGGTGTCTGT

GCAGTATCCGCTGGTGGAAGTCATCACCATGCTGGCTTTTCTGGCTACGGGATTGCTGTGGCTGCCCGGTATGGCGCTGT

GTGGGGCGCTAATCTTGCTGTCCTTTCTGGTGGTGTTGACCGTTATTGATATAAAAACGCTGCTGCTGCCGGATGTGCTT

ACGCTGTCGCTCTTGTGGATAGGGCTATTGTTTAACCTGTCGGAGACATTTGTTTCATTACGTGATGCCGTGGTCGGTGC

GATGGCGGGCTATTTGTCCCTGTGGCTACTTTACTGGGTATTTAAATATGCCACTGGCAAAGACGCGCTGGGGTACGGTG

ATTTTAAGTTGCTGGCTGCACTGGGAGCCTGGCTGGGCTGGCAGGCATTACCGAATCTGGTTTTGGTGGCGGCGCTGAGT

GGTCTGATCGTGACGCTTATTTGGCGTGGATTGCGTAAAGAAGATACGGCTAAACCGCTGGCCTTTGGCCCCTGGCTGGC

AATAGGTGGCGTGTTCAGCGTGATGATGAACGGGTTCAATCTGTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-123)

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

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	50.37	96.085	0.484
pilD	Vibrio campbellii strain DS40M4	46.097	95.73	0.441
pilD	Neisseria gonorrhoeae MS11	48.047	91.103	0.438
pilD	Acinetobacter baumannii D1279779	44.015	92.171	0.406
pilD	Acinetobacter nosocomialis M2	44.015	92.171	0.406

Detailed information NTG0912979