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P08956 (T1RK_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 137. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended 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
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length1170 AA.
Sequence statusComplete.
Protein existenceInferred 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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 11701170Type I restriction enzyme EcoKI R protein
PRO_0000077259

Regions

Domain458 – 639182Helicase ATP-binding
Domain714 – 879166Helicase C-terminal
DNA binding431 – 45020H-T-H motif By similarity
Nucleotide binding472 – 4787ATP By similarity
Coiled coil143 – 22987 Potential
Motif574 – 5774DEAH box

Experimental info

Sequence conflict611 – 67868DAVKI…ERISP → ECGKNRSHRHPGATYCADFR RAGLPLYLPYRGYRRFSDRP GSAYSDHHPQRAGGGLSLQR RAGRAH in CAA29791. Ref.1

Sequences

Sequence LengthMass (Da)Tools
P08956 [UniParc].

Last modified November 24, 2009. Version 3.
Checksum: C5B90A799C455318

FASTA1,170134,095
        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 

« Hide

References

« Hide '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 277:1453-1462(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.
PIRNDECKR. S56576.
RefSeqNP_418770.2. NC_000913.3.
YP_492481.1. NC_007779.1.

3D structure databases

ProteinModelPortalP08956.
SMRP08956. Positions 237-843.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-9944N.
IntActP08956. 15 interactions.
MINTMINT-1243362.
STRING511145.b4350.

Protein family/group databases

REBASE980. EcoKI.
TCDB3.A.17.1.1. the phage t7 injectisome (t7 injectisome) family.

Proteomic databases

PaxDbP08956.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC77306; AAC77306; b4350.
BAE78340; BAE78340; BAE78340.
GeneID12933775.
948878.
KEGGecj:Y75_p4235.
eco:b4350.
PATRIC32124306. VBIEscCol129921_4496.

Organism-specific databases

EchoBASEEB0454.
EcoGeneEG10459. hsdR.

Phylogenomic databases

eggNOGCOG4096.
HOGENOMHOG000295053.
KOK01153.
OrthoDBEOG6MPWQ6.
PhylomeDBP08956.
ProtClustDBPRK11448.

Enzyme and pathway databases

BioCycEcoCyc:EG10459-MONOMER.
ECOL316407:JW4313-MONOMER.
MetaCyc:EG10459-MONOMER.

Gene expression databases

GenevestigatorP08956.

Family and domain databases

Gene3D3.40.50.300. 2 hits.
InterProIPR025285. DUF4145.
IPR013670. EcoEI_R_C_dom.
IPR006935. Helicase/UvrB_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR007409. Restrct_endonuc_type1_HsdR_N.
[Graphical view]
PfamPF13643. 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]
SMARTSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMSSF52540. SSF52540. 2 hits.
PROSITEPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

PROP08956.

Entry information

Entry nameT1RK_ECOLI
AccessionPrimary (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: April 16, 2014
This is version 137 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Restriction enzymes and methylases

Classification of restriction enzymes and methylases and list of entries

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene