Detailed information NTG0414647

Bioinformatically predicted

Overview

• Name: clpC
• Type: Regulator
• Locus tag: GU336_RS04460
• Genome accession: NZ_CP047616
• Coordinates: 883824..886112 (+)
• Length: 762 a.a.
• NCBI ID: WP_167839203.1
• Uniprot ID: A0A6H0UHZ1
• Organism: Lactococcus raffinolactis strain Lr_19_5
• Function: degradation of ComX (predicted from homology) Competence regulation

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type	MGE coordinates	Gene coordinates	Relative position	Distance (bp)
ICE	880799..926500	883824..886112	within	0

Gene organization within MGE regions

Location: 880799..926500

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
GU336_RS04455 (GU336_04445)	rpoD	882455..883585 (+)	1131	WP_096040207.1	RNA polymerase sigma factor RpoD	-
GU336_RS04460 (GU336_04450)	clpC	883824..886112 (+)	2289	WP_167839203.1	ATP-dependent Clp protease ATP-binding subunit	Regulator
GU336_RS04465 (GU336_04455)	-	886345..887295 (+)	951	WP_068164079.1	IS30 family transposase	-
GU336_RS04470 (GU336_04460)	-	887336..887623 (+)	288	WP_014571824.1	helix-turn-helix domain-containing protein	-
GU336_RS04475 (GU336_04465)	-	887626..888504 (+)	879	WP_167839190.1	IS3 family transposase	-
GU336_RS04480 (GU336_04470)	def	888586..889206 (-)	621	WP_096040209.1	peptide deformylase	-
GU336_RS04485 (GU336_04475)	uvrB	889278..891266 (+)	1989	WP_167838559.1	excinuclease ABC subunit UvrB	-
GU336_RS04490 (GU336_04480)	-	891746..892033 (+)	288	WP_061775386.1	lactococcin 972 family bacteriocin	-
GU336_RS04495 (GU336_04485)	-	892096..894054 (+)	1959	WP_167838560.1	DUF1430 domain-containing protein	-
GU336_RS04500 (GU336_04490)	-	894056..894682 (+)	627	WP_096040212.1	ATP-binding cassette domain-containing protein	-
GU336_RS04505 (GU336_04495)	-	894818..895627 (+)	810	WP_167838561.1	transporter substrate-binding domain-containing protein	-
GU336_RS04510 (GU336_04500)	-	895780..896604 (+)	825	WP_167838562.1	transporter substrate-binding domain-containing protein	-
GU336_RS04515 (GU336_04505)	serC	896774..897871 (+)	1098	WP_061774994.1	3-phosphoserine/phosphohydroxythreonine transaminase	-
GU336_RS04520 (GU336_04510)	-	897947..899128 (+)	1182	WP_167838563.1	3-phosphoglycerate dehydrogenase family protein	-
GU336_RS04525 (GU336_04515)	-	899488..900219 (+)	732	WP_167838564.1	methylase	-
GU336_RS04530 (GU336_04520)	-	900212..904558 (+)	4347	WP_209451959.1	Eco57I restriction-modification methylase domain-containing protein	-
GU336_RS04535 (GU336_04525)	-	904555..905154 (+)	600	WP_167838566.1	hypothetical protein	-
GU336_RS04540 (GU336_04530)	-	906047..906997 (-)	951	WP_068164079.1	IS30 family transposase	-
GU336_RS04545 (GU336_04535)	-	907198..907764 (+)	567	WP_167838567.1	hypothetical protein	-
GU336_RS04550 (GU336_04540)	-	907996..908313 (+)	318	WP_167838568.1	hypothetical protein	-
GU336_RS04555 (GU336_04545)	-	908313..909383 (+)	1071	WP_167838569.1	cell division protein FtsK	-
GU336_RS04560 (GU336_04550)	-	909398..909970 (+)	573	WP_167838570.1	hypothetical protein	-
GU336_RS04565 (GU336_04555)	-	910043..911014 (+)	972	WP_167838571.1	Replication initiation protein	-
GU336_RS04570 (GU336_04560)	-	911018..911230 (+)	213	WP_167838572.1	DNA-binding protein	-
GU336_RS04575 (GU336_04565)	-	911302..911964 (+)	663	WP_167838573.1	phage integrase SAM-like domain-containing protein	-
GU336_RS04580 (GU336_04570)	-	912023..912973 (+)	951	WP_167838195.1	IS30 family transposase	-
GU336_RS04585 (GU336_04575)	-	912966..913610 (+)	645	WP_167838574.1	site-specific integrase	-
GU336_RS04590 (GU336_04580)	-	913741..914100 (+)	360	WP_167838575.1	arsenate reductase family protein	-
GU336_RS04595 (GU336_04585)	-	914399..915226 (-)	828	WP_167838576.1	exodeoxyribonuclease III	-
GU336_RS04600 (GU336_04590)	-	915353..915508 (-)	156	WP_156470230.1	hypothetical protein	-
GU336_RS04605 (GU336_04595)	-	915857..917683 (+)	1827	WP_167838577.1	Cna B-type domain-containing protein	-
GU336_RS04610 (GU336_04600)	metG	917799..919811 (+)	2013	WP_061774990.1	methionine--tRNA ligase	-
GU336_RS04615 (GU336_04605)	-	919817..920152 (+)	336	WP_061774989.1	DUF1622 domain-containing protein	-
GU336_RS04620 (GU336_04610)	-	920189..920647 (+)	459	WP_167838578.1	GNAT family N-acetyltransferase	-
GU336_RS04625 (GU336_04615)	yqeK	920644..921264 (+)	621	WP_096040220.1	bis(5'-nucleosyl)-tetraphosphatase (symmetrical) YqeK	-
GU336_RS04630 (GU336_04620)	rnc	921334..922053 (+)	720	WP_167838579.1	ribonuclease III	-
GU336_RS04635 (GU336_04625)	smc	922055..925591 (+)	3537	WP_167838580.1	chromosome segregation protein SMC	-
GU336_RS04640 (GU336_04630)	-	925613..926419 (+)	807	WP_096040223.1	Cof-type HAD-IIB family hydrolase	-

Sequence

Protein

• Length: 762 a.a.
• Molecular weight: 84023.79 Da
• Isoelectric Point: 4.7545

>NTDB_id=414647 GU336_RS04460 WP_167839203.1 883824..886112(+) (clpC) [Lactococcus raffinolactis strain Lr_19_5]
MLCQNCQLNEATIHLYANVNGVKKQNDLCQNCYQIMKSGGPTNLFGGGANQGATNQSDANYNPFDDLFGTLGNNMNHPNG
RPDNATPPTQTGRGGNGGQPPRGRAGNAQPKGMLEDFGFNVTESARKGEIDPVIGRDQEITRVIEILNRRTKNNPVLIGE
PGVGKTAVVEGLAQKIVDGDVPQKLQNKEVIRLDVVSLVQGTGIRGQFEERMQKLMKEISDRQDVILFIDEIHEIVGAGS
AGDGNMDAGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVDETITILRGIQKRYEDYHHVKYTDE
AIEQAAILSNRYIQDRFLPDKAIDLLDESGSKKNLTLKFVDPQEIAKRIQSSEDAKNQALRSEDFEKAAHFRDQIAKLRE
LSKQELTDEETPVITEKDIESIIEEKTKIPVGDLKEKEQTQLINLADDLKAHVIGQDDAIDKISKAVRRNRVGLGKANRP
IGSFMFVGPTGVGKTELAKQLALELFGSQDSMIRFDMSEYMEKHSVAKLIGAPPGYVGYEEAGQLTEKVRRNPYSLILLD
EIEKAHPDVMHMFLQILDDGRLTDAQGRTISFKDTIIIMTSNAGTGKVEANVGFGAAREGTTNSVLGQLGDFFSPEFMNR
FDGIIEFKALSKDNLLQIVDLMLADVNAQISRNEIHLDVTQAVKEKLVDLGYDPKMGARPLRRTIQDHIEDAIADFYIEH
PEHKMLTADVIDDQIVIVNQSDDATTDGAIAETTADAGSADA

Nucleotide

• Length: 2289 bp

>NTDB_id=414647 GU336_RS04460 WP_167839203.1 883824..886112(+) (clpC) [Lactococcus raffinolactis strain Lr_19_5]
ATGCTCTGTCAAAATTGTCAGCTTAATGAAGCAACGATTCACCTCTACGCAAATGTAAATGGTGTCAAAAAACAAAATGA
TCTCTGCCAAAACTGTTACCAAATCATGAAATCAGGTGGACCTACAAATCTTTTTGGTGGTGGTGCTAACCAAGGCGCAA
CCAATCAATCAGATGCTAACTATAATCCCTTCGATGATCTTTTCGGAACATTAGGTAATAATATGAACCATCCTAATGGC
CGACCAGACAATGCCACACCGCCAACACAGACTGGTCGTGGTGGTAATGGTGGTCAACCACCTCGTGGTCGTGCAGGAAA
CGCACAACCCAAAGGTATGCTAGAAGACTTCGGTTTTAACGTGACTGAAAGTGCCCGTAAAGGTGAAATTGACCCAGTCA
TTGGACGTGATCAGGAAATTACTCGCGTGATTGAAATTCTCAATCGCCGGACTAAAAATAATCCTGTTTTAATTGGCGAA
CCTGGTGTTGGTAAAACTGCTGTCGTTGAAGGCTTAGCCCAAAAAATCGTTGATGGTGATGTGCCACAAAAACTACAAAA
TAAAGAAGTTATTCGACTAGATGTTGTGAGTTTGGTTCAAGGGACAGGGATTCGTGGTCAATTTGAAGAGCGCATGCAAA
AATTGATGAAAGAAATCTCTGACCGTCAAGATGTGATTCTTTTCATCGATGAAATCCATGAAATCGTGGGTGCTGGGTCT
GCTGGCGATGGTAATATGGATGCTGGCAACATTTTGAAGCCAGCATTGGCTCGTGGTGAATTGCAGCTGGTCGGTGCAAC
AACGCTAAATGAATATCGGATCATTGAAAAAGATGCTGCGCTTGAACGTCGGATGCAACCAGTTAAAGTTGATGAACCTT
CTGTTGATGAAACGATTACTATTTTACGCGGGATTCAAAAACGTTATGAAGACTACCATCACGTGAAATATACGGATGAA
GCGATTGAACAGGCAGCCATCTTGTCTAACCGTTATATTCAAGATCGTTTCTTGCCTGACAAGGCCATTGACTTGTTAGA
TGAGTCTGGATCTAAGAAAAATCTGACTTTAAAATTCGTTGATCCTCAGGAAATTGCCAAACGGATTCAGTCTTCTGAAG
ATGCCAAAAATCAAGCCTTGCGTTCTGAAGACTTCGAAAAAGCAGCACATTTCCGTGATCAAATCGCCAAATTGCGAGAA
TTATCTAAGCAAGAATTGACGGATGAAGAAACACCAGTCATCACTGAAAAAGACATCGAATCTATCATTGAAGAAAAAAC
GAAGATTCCTGTAGGTGATTTGAAAGAAAAAGAACAAACGCAGTTAATCAATTTAGCCGATGACTTGAAAGCGCATGTCA
TTGGTCAAGATGATGCCATTGATAAAATTTCCAAGGCAGTCCGTCGTAACCGTGTAGGCCTTGGGAAAGCCAATCGCCCA
ATCGGTAGCTTTATGTTTGTCGGACCAACGGGTGTTGGTAAAACAGAACTTGCTAAGCAATTAGCCCTGGAGCTTTTCGG
TAGTCAAGACAGCATGATTCGATTCGATATGAGCGAATACATGGAAAAACACAGTGTGGCGAAGCTGATTGGTGCGCCTC
CTGGTTATGTTGGTTATGAAGAAGCAGGGCAACTGACTGAAAAAGTCCGTCGCAATCCTTATTCATTGATCTTACTGGAC
GAAATCGAAAAAGCCCATCCAGATGTTATGCACATGTTCTTACAAATCTTGGACGACGGTCGTCTGACCGATGCTCAAGG
TCGTACGATTAGCTTTAAGGACACGATTATCATCATGACCTCAAATGCAGGGACTGGTAAAGTAGAAGCCAATGTCGGCT
TCGGTGCAGCTCGTGAAGGCACGACAAACTCTGTCTTAGGTCAACTTGGTGATTTCTTCAGCCCTGAGTTCATGAACCGT
TTTGACGGCATCATTGAATTCAAAGCCTTAAGTAAAGACAATCTCCTGCAAATTGTTGACTTGATGCTGGCTGACGTTAA
TGCACAGATTTCAAGAAATGAAATCCATTTGGACGTAACTCAAGCAGTCAAAGAAAAATTAGTTGATCTTGGTTATGATC
CGAAAATGGGCGCTCGACCACTCCGCCGGACTATCCAAGACCATATCGAAGATGCCATCGCAGATTTTTATATCGAACAT
CCCGAACATAAAATGCTCACAGCAGACGTCATTGATGATCAAATCGTCATTGTCAATCAGTCTGATGACGCAACAACGGA
TGGAGCTATAGCAGAAACAACAGCTGATGCAGGCTCTGCTGACGCTTAA

Domains

Predicted by InterproScan.

• ATPase family associated with various cellular activities (AAA) (AAA) (156-275)

• AAA domain (Cdc48 subfamily) (AAA_2) (479-642)

• C-terminal, D2-small domain, of ClpB protein (ClpB_D2-small) (650-720)

• AAA lid domain (AAA_lid_9) (294-393)

3D structure

• AlphaFold DB: A0A6H0UHZ1

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
clpC	Lactococcus lactis subsp. cremoris KW2	83.089	98.556	0.819
clpE	Streptococcus mutans UA159	76.471	100	0.768
clpE	Streptococcus pneumoniae Rx1	75.806	97.638	0.74
clpE	Streptococcus pneumoniae D39	75.806	97.638	0.74
clpE	Streptococcus pneumoniae R6	75.806	97.638	0.74
clpE	Streptococcus pneumoniae TIGR4	75.806	97.638	0.74
clpC	Bacillus subtilis subsp. subtilis str. 168	50.223	88.32	0.444
clpC	Streptococcus pneumoniae Rx1	48.232	81.627	0.394
clpC	Streptococcus pneumoniae TIGR4	48.232	81.627	0.394
clpC	Streptococcus pneumoniae D39	48.232	81.627	0.394
clpC	Lactococcus lactis subsp. lactis strain DGCC12653	47.826	81.496	0.39
clpC	Streptococcus thermophilus LMD-9	44.781	86.745	0.388
clpC	Streptococcus thermophilus LMG 18311	44.478	86.745	0.386
clpC	Streptococcus mutans UA159	46.667	80.709	0.377