Detailed information NTG0001306

Experimentally validated

Overview

• Name: pilB
• Type: Machinery gene
• Locus tag: DR_RS10060
• Genome accession: NC_001263
• Coordinates: 1983894..1986557 (-)
• Length: 887 a.a.
• NCBI ID: WP_027479822.1
• Uniprot ID: -
• Organism: Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
• Function: assembly of type IV pilus DNA binding and uptake

Function

We identified the factors (PilQ, PilD, type IV pilins, PilB, PilT, ComEC-ComEA, and ComF) involved in DNA uptake and DNA translocation across the external and cytoplasmic membranes and showed that the DNA-uptake machinery is similar to that described in the Gram negative bacterium Vibrio cholerae.

Genomic Context

Location: 1978894..1991557

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
DR_RS10035 (DR_1959)	-	1979214..1979771 (+)	558	WP_010888592.1	nucleotidyltransferase family protein	-
DR_RS10040 (DR_1960)	-	1979846..1981045 (+)	1200	WP_010888593.1	acetyl-CoA C-acetyltransferase	-
DR_RS10045 (DR_1961)	-	1981234..1981764 (+)	531	WP_010888594.1	ankyrin repeat domain-containing protein	-
DR_RS16865	-	1981662..1981916 (+)	255	WP_234944694.1	ankyrin repeat domain-containing protein	-
DR_RS10050 (DR_1962)	-	1981994..1982506 (+)	513	WP_010888595.1	hypothetical protein	-
DR_RS10055 (DR_1963)	-	1982569..1983825 (-)	1257	WP_034350111.1	type IV pilus twitching motility protein PilT	-
DR_RS10060 (DR_1964)	pilB	1983894..1986557 (-)	2664	WP_027479822.1	ATPase, T2SS/T4P/T4SS family	Machinery gene
DR_RS10065 (DR_1965)	-	1986737..1987261 (-)	525	WP_010888598.1	YqeG family HAD IIIA-type phosphatase	-
DR_RS10070 (DR_1966)	pgeF	1987258..1988019 (-)	762	WP_010888599.1	peptidoglycan editing factor PgeF	-
DR_RS10075 (DR_1967)	-	1988113..1988907 (+)	795	WP_010888600.1	enoyl-ACP reductase FabI	-
DR_RS10080 (DR_1968)	-	1989116..1989754 (-)	639	WP_027479823.1	nitroreductase family protein	-
DR_RS10085 (DR_1969)	-	1989844..1990194 (+)	351	WP_027479824.1	winged helix-turn-helix transcriptional regulator	-
DR_RS10090 (DR_1970)	-	1990265..1990750 (-)	486	WP_010888603.1	GreA/GreB family elongation factor	-

Sequence

Protein

• Length: 887 a.a.
• Molecular weight: 97248.06 Da
• Isoelectric Point: 4.8389

>NTDB_id=1306 DR_RS10060 WP_027479822.1 1983894..1986557(-) (pilB) [Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539]
MALSIGDRRLGAILLDQGYLGDNDLQRALERHSEVGGRLADVLIDSGMVGEKRIARAIEEALGIPLVNLLAVQPDPAALR
SIRPQTALNLQAFPFALEGDRLRVALVDPLSSFSIETLEDDSGFDIEPYQALREEVMWAIATHYPELGLEIVVPSGASDA
GRTGGKLGERLITHGYITDAQLQVALDAQQQTGEALGATLISQRAITEDQLYEVLAEQEGTTFLPNPSGFHPGEEVLGSM
LRADALRLLAVPVDETEQGVTVLTSDPRKRPDIDALIGRPVQLMLTRPRDIERLIEQFYPQRGRLGEQLVQEGTLSRDQL
REALQVQAREGKVKPLGEVITELGFASPDEVDSALQKQNVGGGRLEDTLVQSGKLSPEMLARSLAAQLGYEFLDPIQNPP
DPKVALMIPEATARRYVVVPVRLQGNSLVVAMKDPRNVFALDDLKLITGKEILPAVMAEKDIIRLIERYFGEKGFEKLNK
ELAERNKTQQSQEADLSVADESAIVQVVDSIIREAALQDASDIHIETTEDAVKVRYRIDGALREQNSFPKGAAQQIMARL
KIMGHLDIAERRVPQDGRVRFKKGSIDLDLRLSTLPTVYGEKAVMRLLQKASNIPELEQLGFSEYNYARYTEIIERPNGI
FLVTGPTGSGKSFTCFSTLKRIAKPEKNTTTIEDPIEYEVPGIVQSQVNNSTGMTFARALRAFLRQDPDIIFVGEIRDQE
TAKIAVEAALTGHMVLATLHTNDAPGAVTRLEEMGIENFNISAAVMGVLAQRLVRRVCSECKQPTNADPEVLRRLGISER
DIRGANLMRGTGCPRCGGTGYKGRMGIHELMVMDDSLRRTIGAGRPAAEIRDVALGESGLRSLRQDGIEKALQGLTTLEE
VLAVTAS

Nucleotide

• Length: 2664 bp

>NTDB_id=1306 DR_RS10060 WP_027479822.1 1983894..1986557(-) (pilB) [Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539]
TTGGCTCTTTCGATTGGTGACCGCCGCCTGGGCGCGATTTTGCTGGACCAGGGGTATCTGGGCGACAACGACTTGCAGCG
GGCGCTGGAGCGGCACTCCGAGGTGGGGGGCCGCCTCGCTGACGTGCTGATCGACTCCGGCATGGTGGGCGAAAAACGCA
TCGCCCGCGCCATCGAGGAAGCGCTCGGCATTCCGCTGGTCAACCTGCTGGCGGTGCAGCCCGACCCGGCGGCGCTGCGC
TCGATTCGGCCCCAGACGGCCCTCAACTTGCAGGCGTTTCCCTTCGCGCTCGAAGGTGACCGGCTGCGGGTGGCGCTGGT
GGACCCGCTGTCGAGCTTTTCGATCGAGACGCTTGAAGACGACAGCGGCTTCGACATCGAACCGTATCAGGCGCTGCGCG
AGGAAGTGATGTGGGCCATCGCCACGCACTACCCCGAGCTTGGCCTGGAGATCGTGGTGCCCAGCGGGGCCAGCGACGCC
GGGCGCACCGGAGGCAAGCTCGGTGAGCGGCTGATCACGCACGGCTACATCACCGACGCACAGCTTCAGGTGGCGCTCGA
CGCGCAGCAGCAGACCGGCGAGGCGCTCGGGGCGACCCTGATCTCGCAGCGGGCCATCACCGAAGACCAGCTCTACGAGG
TGCTCGCCGAACAGGAAGGCACCACCTTCCTTCCCAACCCCAGCGGTTTTCACCCCGGCGAGGAAGTCCTCGGCAGCATG
CTGCGCGCCGACGCCCTGCGCCTGCTCGCGGTGCCGGTGGACGAAACCGAGCAGGGCGTGACGGTCCTGACGAGCGACCC
GCGCAAGCGCCCCGACATCGACGCGCTCATCGGGCGCCCAGTGCAGTTGATGCTCACGCGCCCGCGCGACATCGAGCGCC
TGATTGAGCAGTTCTACCCGCAACGGGGCCGCCTCGGCGAGCAACTCGTGCAGGAAGGCACGCTGTCGCGCGACCAGTTG
CGCGAGGCGCTTCAGGTGCAGGCCCGTGAGGGCAAGGTCAAGCCGCTCGGCGAGGTCATCACCGAACTCGGATTCGCCAG
CCCCGACGAGGTGGATTCGGCGCTGCAAAAGCAGAACGTCGGCGGAGGCCGCCTGGAAGACACCCTGGTGCAGTCAGGCA
AGCTCAGCCCCGAGATGCTCGCCCGCTCGCTCGCCGCGCAGCTCGGCTACGAGTTCCTCGACCCCATCCAGAACCCGCCG
GACCCCAAGGTCGCGCTGATGATTCCCGAGGCCACCGCCCGCCGCTACGTAGTGGTGCCGGTCAGGCTCCAGGGCAACTC
GCTCGTCGTCGCCATGAAAGACCCGCGCAACGTGTTTGCGCTCGACGACCTCAAGCTGATTACCGGCAAAGAAATCCTGC
CCGCCGTGATGGCGGAAAAAGACATCATCCGCCTGATCGAGCGCTACTTCGGGGAAAAGGGCTTCGAGAAGCTCAACAAG
GAACTCGCCGAGCGCAACAAGACCCAGCAGTCGCAGGAAGCCGACCTCTCGGTGGCCGACGAGAGCGCCATCGTGCAGGT
GGTGGACTCGATTATCCGCGAGGCCGCGCTGCAAGACGCCTCGGACATTCACATCGAAACCACCGAGGACGCCGTCAAGG
TGCGCTACCGCATCGACGGTGCGCTGCGCGAGCAGAACTCCTTTCCCAAGGGCGCGGCGCAGCAGATCATGGCCCGCCTC
AAGATCATGGGCCACCTCGACATCGCCGAGCGCCGCGTGCCGCAAGACGGGCGCGTGCGCTTCAAGAAGGGCAGCATCGA
CCTCGACCTGCGTCTCTCGACCCTGCCCACCGTGTACGGCGAGAAAGCCGTCATGCGTCTGCTGCAAAAGGCGAGCAACA
TCCCCGAACTCGAGCAGCTCGGCTTTTCCGAGTACAACTACGCCCGCTACACCGAGATTATCGAGCGGCCCAACGGCATT
TTTCTGGTCACCGGGCCGACGGGGTCGGGCAAGTCGTTCACCTGTTTTTCGACCCTCAAGCGCATCGCCAAGCCCGAGAA
AAACACCACGACCATCGAAGACCCCATCGAGTACGAGGTGCCGGGCATCGTGCAGTCGCAGGTGAACAACTCGACCGGGA
TGACCTTTGCCCGCGCCCTGCGCGCCTTCCTGCGTCAGGACCCCGACATCATCTTCGTGGGCGAAATCCGTGACCAGGAA
ACCGCCAAGATTGCGGTGGAAGCGGCGCTCACCGGCCACATGGTGCTCGCCACTCTGCACACCAACGACGCGCCAGGCGC
CGTGACCCGCCTTGAGGAAATGGGCATCGAGAACTTCAACATCTCGGCGGCCGTGATGGGCGTGCTCGCGCAGCGGCTGG
TGCGCCGGGTGTGCAGCGAGTGCAAGCAGCCCACCAACGCCGACCCCGAGGTGCTCCGGCGGCTCGGCATCAGCGAGCGC
GATATTCGCGGCGCGAATCTGATGCGCGGGACCGGCTGTCCCCGCTGCGGCGGCACCGGCTACAAGGGCCGCATGGGGAT
CCACGAGCTGATGGTGATGGACGACTCGCTGCGCCGCACCATCGGGGCCGGGCGGCCCGCCGCCGAAATCCGCGACGTGG
CGCTGGGCGAAAGCGGCCTGCGGAGCCTGCGCCAGGACGGCATCGAAAAGGCCCTGCAAGGCCTGACCACCCTTGAAGAA
GTGCTGGCCGTCACCGCGAGCTGA

Domains

Predicted by InterproScan.

• Type II/IV secretion system protein (T2SSE) (511-776)

• Type II secretion system (T2SS), protein E, N-terminal domain (MshEN) (369-472)

• Type II secretion system (T2SS), protein E, N-terminal domain (MshEN) (200-303)

• Type II secretion system (T2SS), protein E, N-terminal domain (MshEN) (43-146)

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilF	Thermus thermophilus HB27	56.229	100	0.565
pilB	Glaesserella parasuis strain SC1401	38.248	100	0.388
pilB	Haemophilus influenzae Rd KW20	37.393	100	0.377
pilB	Haemophilus influenzae 86-028NP	37.393	100	0.377
pilF	Neisseria gonorrhoeae MS11	39.885	93.907	0.375
pilB	Vibrio parahaemolyticus RIMD 2210633	36.861	100	0.373
pilB	Legionella pneumophila strain ERS1305867	39.509	92.16	0.364
pilB	Vibrio campbellii strain DS40M4	36.38	99.465	0.362

References

• [1]: Solenne Ithurbide et al. (2020) Natural Transformation in Deinococcus radiodurans: A Genetic Analysis Reveals the Major Roles of DprA, DdrB, RecA, RecF, and RecO Proteins. Frontiers in Microbiology 11:1253. [PMID: 32625182]