P08956 (T1RK_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Type I restriction enzyme EcoKI R protein
Short name=R.EcoKI
EC=3.1.21.3

Gene names

Name:	hsdR
Synonyms:	hsr
Ordered Locus Names:	b4350, JW4313

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia › Escherichia coli

Protein attributes

Sequence length	1170 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	The EcoKI enzyme recognizes 5'-AACN6GTGC-3'. Subunit R is required for both nuclease and ATPase activities, but not for modification.
Catalytic activity	Endonucleolytic cleavage of DNA to give random double-stranded fragments with terminal 5'-phosphates; ATP is simultaneously hydrolyzed.
Subunit structure	The type I restriction/modification system is composed of three polypeptides R, M and S.
Miscellaneous	Type I restriction and modification enzymes are complex, multifunctional systems which require ATP, S-adenosyl methionine and magnesium as cofactors and, in addition to their endonucleolytic and methylase activities, are potent DNA-dependent ATPases.
Sequence similarities	Belongs to the HsdR family. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain.
Sequence caution	The sequence AAA97247.1 differs from that shown. Reason: Erroneous initiation. The sequence BAE78340.1 differs from that shown. Reason: Erroneous initiation. The sequence CAA29791.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened. The sequence CAA29791.1 differs from that shown. Reason: Frameshift at position 1066. The sequence CAA38116.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Restriction system
Domain	Coiled coil
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Helicase Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA restriction-modification system Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: UniProtKB-KW Type I site-specific deoxyribonuclease activity Inferred from electronic annotation. Source: EC helicase activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1170	1170	Type I restriction enzyme EcoKI R protein		PRO_0000077259
Regions
	Domain	458 – 639	182	Helicase ATP-binding
	Domain	714 – 879	166	Helicase C-terminal
	DNA binding	431 – 450	20	H-T-H motif By similarity
	Nucleotide binding	472 – 478	7	ATP By similarity
	Coiled coil	143 – 229	87	Potential
	Motif	574 – 577	4	DEAH box
Experimental info
	Sequence conflict	611 – 678	68	DAVKI…ERISP → ECGKNRSHRHPGATYCADFR RAGLPLYLPYRGYRRFSDRP GSAYSDHHPQRAGGGLSLQR RAGRAH in CAA29791. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P08956 [UniParc]. Last modified November 24, 2009. Version 3. Checksum: C5B90A799C455318	FASTA	1,170	134,095
	10 20 30 40 50 60 MMNKSNFEFL KGVNDFTYAI ACAAENNYPD DPNTTLIKMR MFGEATAKHL GLLLNIPPCE 70 80 90 100 110 120 NQHDLLRELG KIAFVDDNIL SVFHKLRRIG NQAVHEYHND LNDAQMCLRL GFRLAVWYYR 130 140 150 160 170 180 LVTKDYDFPV PVFVLPERGE NLYHQEVLTL KQQLEQQVRE KAQTQAEVEA QQQKLVALNG 190 200 210 220 230 240 YIAILEGKQQ ETEAQTQARL AALEAQLAEK NAELAKQTEQ ERKAYHKEIT DQAIKRTLNL 250 260 270 280 290 300 SEEESRFLID AQLRKAGWQA DSKTLRFSKG ARPEPGVNKA IAEWPTGKDE TGNQGFADYV 310 320 330 340 350 360 LFVGLKPIAV VEAKRNNIDV PARLNESYRY SKCFDNGFLR ETLLEHYSPD EVHEAVPEYE 370 380 390 400 410 420 TSWQDTSGKQ RFKIPFCYST NGREYRATMK TKSGIWYRDV RDTRNMSKAL PEWHRPEELL 430 440 450 460 470 480 EMLGSEPQKQ NQWFADNPGM SELGLRYYQE DAVRAVEKAI VKGQQEILLA MATGTGKTRT 490 500 510 520 530 540 AIAMMFRLIQ SQRFKRILFL VDRRSLGEQA LGAFEDTRIN GDTFNSIFDI KGLTDKFPED 550 560 570 580 590 600 STKIHVATVQ SLVKRTLQSD EPMPVARYDC IVVDEAHRGY ILDKEQTEGE LQFRSQLDYV 610 620 630 640 650 660 SAYRRILDHF DAVKIALTAT PALHTVQIFG EPVYRYTYRT AVIDGFLIDQ DPPIQIITRN 670 680 690 700 710 720 AQEGVYLSKG EQVERISPQG EVINDTLEDD QDFEVADFNR GLVIPAFNRA VCNELTNYLD 730 740 750 760 770 780 PTGSQKTLVF CVTNAHADMV VEELRAAFKK KYPQLEHDAI IKITGDADKD ARKVQTMITR 790 800 810 820 830 840 FNKERLPNIV VTVDLLTTGV DIPSICNIVF LRKVRSRILY EQMKGRATRL CPEVNKTSFK 850 860 870 880 890 900 IFDCVDIYST LESVDTMRPV VVRPKVELQT LVNEITDSET YKITEADGRS FAEHSHEQLV 910 920 930 940 950 960 AKLQRIIGLA TFNRDRSETI DKQVRRLDEL CQDAAGVNFN GFASRLREKG PHWSAEVFNK 970 980 990 1000 1010 1020 LPGFIARLEK LKTDINNLND APIFLDIDDE VVSVKSLYGD YDTPQDFLEA FDSLVQRSPN 1030 1040 1050 1060 1070 1080 AQPALQAVIN RPRDLTRKGL VELQEWFDRQ HFEESSLRKA WKETRNEDIA ARLIGHIRRA 1090 1100 1110 1120 1130 1140 AVGDALKPFE ERVDHALTRI KGENDWSSEQ LSWLDRLAQA LKEKVVLDDD VFKTGNFHRR 1150 1160 1170 GGKAMLQRTF DDNLDTLLGK FSDYIWDELA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Organization and sequence of the hsd genes of Escherichia coli K-12." Loenen W.A.M., Daniel A.S., Braymer H.D., Murray N.E. J. Mol. Biol. 198:159-170(1987) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12.
[2]	"Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes." Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L., Blattner F.R. Nucleic Acids Res. 23:2105-2119(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[4]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]	"Characterization and expression of the Escherichia coli Mrr restriction system." Waite-Rees P.A., Keating C.J., Moran L.S., Slatko B.E., Hornstra L.J., Benner J.S. J. Bacteriol. 173:5207-5219(1991) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-9. Strain: K12 / CR63.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X06545 Genomic DNA. Translation: CAA29791.1. Sequence problems. U14003 Genomic DNA. Translation: AAA97247.1. Different initiation. U00096 Genomic DNA. Translation: AAC77306.2. AP009048 Genomic DNA. Translation: BAE78340.1. Different initiation. X54198 Genomic DNA. Translation: CAA38116.1. Different initiation.
PIR	NDECKR. S56576.
RefSeq	NP_418770.2. NC_000913.2. YP_492481.1. NC_007779.1.
3D structure databases
ProteinModelPortal	P08956.
SMR	P08956. Positions 237-843.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-9944N.
IntAct	P08956. 15 interactions.
MINT	MINT-1243362.
STRING	511145.b4350.
Protein family/group databases
REBASE	980. EcoKI.
TCDB	3.A.17.1.1. phage T7 injectisome family.
Proteomic databases
PaxDb	P08956.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAC77306; AAC77306; b4350. BAE78340; BAE78340; BAE78340.
GeneID	12933775. 948878.
KEGG	ecj:Y75_p4235. eco:b4350.
PATRIC	32124306. VBIEscCol129921_4496.
Organism-specific databases
EchoBASE	EB0454.
EcoGene	EG10459. hsdR.
Phylogenomic databases
eggNOG	COG4096.
HOGENOM	HOG000295053.
KO	K01153.
ProtClustDB	PRK11448.
Enzyme and pathway databases
BioCyc	EcoCyc:EG10459-MONOMER. ECOL316407:JW4313-MONOMER. MetaCyc:EG10459-MONOMER.
Gene expression databases
Genevestigator	P08956.
Family and domain databases
InterPro	IPR025285. DUF4145. IPR013670. EcoEI_R_C_dom. IPR006935. Helicase/UvrB_dom. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. IPR007409. Restrct_endonuc_type1_HsdR_N. [Graphical view]
Pfam	PF13643. DUF4145. 1 hit. PF08463. EcoEI_R_C. 1 hit. PF00271. Helicase_C. 1 hit. PF04313. HSDR_N. 1 hit. PF04851. ResIII. 1 hit. [Graphical view]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
PROSITE	PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

T1RK_ECOLI

Accession

Primary (citable) accession number: P08956
Secondary accession number(s): Q2M5W6

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1988
Last sequence update:	November 24, 2009
Last modified:	May 1, 2013
This is version 127 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program