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P08956

- T1RK_ECOLI

UniProt

P08956 - T1RK_ECOLI

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Protein

Type I restriction enzyme EcoKI R protein

Gene

hsdR

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi

Functioni

The EcoKI enzyme recognizes 5'-AACN6GTGC-3'. Subunit R is required for both nuclease and ATPase activities, but not for modification.

Catalytic activityi

Endonucleolytic cleavage of DNA to give random double-stranded fragments with terminal 5'-phosphates; ATP is simultaneously hydrolyzed.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi431 – 45020H-T-H motifBy similarityAdd
BLAST
Nucleotide bindingi472 – 4787ATPPROSITE-ProRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. helicase activity Source: UniProtKB-KW
  4. Type I site-specific deoxyribonuclease activity Source: UniProtKB-EC

GO - Biological processi

  1. DNA restriction-modification system Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Restriction system

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Enzyme and pathway databases

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

Protein family/group databases

REBASEi980. EcoKI.
TCDBi3.A.17.1.1. the phage t7 injectisome (t7 injectisome) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Type I restriction enzyme EcoKI R protein (EC:3.1.21.3)
Short name:
R.EcoKI
Gene namesi
Name:hsdR
Synonyms:hsr
Ordered Locus Names:b4350, JW4313
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG10459. hsdR.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11701170Type I restriction enzyme EcoKI R proteinPRO_0000077259Add
BLAST

Proteomic databases

PaxDbiP08956.

Expressioni

Gene expression databases

GenevestigatoriP08956.

Interactioni

Subunit structurei

The type I restriction/modification system is composed of three polypeptides R, M and S.

Protein-protein interaction databases

DIPiDIP-9944N.
IntActiP08956. 15 interactions.
MINTiMINT-1243362.
STRINGi511145.b4350.

Structurei

3D structure databases

ProteinModelPortaliP08956.
SMRiP08956. Positions 237-843.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini458 – 639182Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini714 – 879166Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili143 – 22987Sequence AnalysisAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi574 – 5774DEAH box

Sequence similaritiesi

Belongs to the HsdR family.Curated
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG4096.
HOGENOMiHOG000295053.
InParanoidiP08956.
KOiK01153.
OrthoDBiEOG6MPWQ6.
PhylomeDBiP08956.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR025285. 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]
PfamiPF13643. 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]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P08956-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MMNKSNFEFL KGVNDFTYAI ACAAENNYPD DPNTTLIKMR MFGEATAKHL
60 70 80 90 100
GLLLNIPPCE NQHDLLRELG KIAFVDDNIL SVFHKLRRIG NQAVHEYHND
110 120 130 140 150
LNDAQMCLRL GFRLAVWYYR LVTKDYDFPV PVFVLPERGE NLYHQEVLTL
160 170 180 190 200
KQQLEQQVRE KAQTQAEVEA QQQKLVALNG YIAILEGKQQ ETEAQTQARL
210 220 230 240 250
AALEAQLAEK NAELAKQTEQ ERKAYHKEIT DQAIKRTLNL SEEESRFLID
260 270 280 290 300
AQLRKAGWQA DSKTLRFSKG ARPEPGVNKA IAEWPTGKDE TGNQGFADYV
310 320 330 340 350
LFVGLKPIAV VEAKRNNIDV PARLNESYRY SKCFDNGFLR ETLLEHYSPD
360 370 380 390 400
EVHEAVPEYE TSWQDTSGKQ RFKIPFCYST NGREYRATMK TKSGIWYRDV
410 420 430 440 450
RDTRNMSKAL PEWHRPEELL EMLGSEPQKQ NQWFADNPGM SELGLRYYQE
460 470 480 490 500
DAVRAVEKAI VKGQQEILLA MATGTGKTRT AIAMMFRLIQ SQRFKRILFL
510 520 530 540 550
VDRRSLGEQA LGAFEDTRIN GDTFNSIFDI KGLTDKFPED STKIHVATVQ
560 570 580 590 600
SLVKRTLQSD EPMPVARYDC IVVDEAHRGY ILDKEQTEGE LQFRSQLDYV
610 620 630 640 650
SAYRRILDHF DAVKIALTAT PALHTVQIFG EPVYRYTYRT AVIDGFLIDQ
660 670 680 690 700
DPPIQIITRN AQEGVYLSKG EQVERISPQG EVINDTLEDD QDFEVADFNR
710 720 730 740 750
GLVIPAFNRA VCNELTNYLD PTGSQKTLVF CVTNAHADMV VEELRAAFKK
760 770 780 790 800
KYPQLEHDAI IKITGDADKD ARKVQTMITR FNKERLPNIV VTVDLLTTGV
810 820 830 840 850
DIPSICNIVF LRKVRSRILY EQMKGRATRL CPEVNKTSFK IFDCVDIYST
860 870 880 890 900
LESVDTMRPV VVRPKVELQT LVNEITDSET YKITEADGRS FAEHSHEQLV
910 920 930 940 950
AKLQRIIGLA TFNRDRSETI DKQVRRLDEL CQDAAGVNFN GFASRLREKG
960 970 980 990 1000
PHWSAEVFNK LPGFIARLEK LKTDINNLND APIFLDIDDE VVSVKSLYGD
1010 1020 1030 1040 1050
YDTPQDFLEA FDSLVQRSPN AQPALQAVIN RPRDLTRKGL VELQEWFDRQ
1060 1070 1080 1090 1100
HFEESSLRKA WKETRNEDIA ARLIGHIRRA AVGDALKPFE ERVDHALTRI
1110 1120 1130 1140 1150
KGENDWSSEQ LSWLDRLAQA LKEKVVLDDD VFKTGNFHRR GGKAMLQRTF
1160 1170
DDNLDTLLGK FSDYIWDELA
Length:1,170
Mass (Da):134,095
Last modified:November 24, 2009 - v3
Checksum:iC5B90A799C455318
GO

Sequence cautioni

The sequence AAA97247.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence BAE78340.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence CAA29791.1 differs from that shown. Reason: Frameshift at position 1066. Curated
The sequence CAA29791.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence CAA38116.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti611 – 67868DAVKI…ERISP → ECGKNRSHRHPGATYCADFR RAGLPLYLPYRGYRRFSDRP GSAYSDHHPQRAGGGLSLQR RAGRAH in CAA29791. (PubMed:3323532)CuratedAdd
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
PIRiS56576. NDECKR.
RefSeqiNP_418770.2. NC_000913.3.
YP_492481.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC77306; AAC77306; b4350.
BAE78340; BAE78340; BAE78340.
GeneIDi12933775.
948878.
KEGGiecj:Y75_p4235.
eco:b4350.
PATRICi32124306. VBIEscCol129921_4496.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
PIRi S56576. NDECKR.
RefSeqi NP_418770.2. NC_000913.3.
YP_492481.1. NC_007779.1.

3D structure databases

ProteinModelPortali P08956.
SMRi P08956. Positions 237-843.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-9944N.
IntActi P08956. 15 interactions.
MINTi MINT-1243362.
STRINGi 511145.b4350.

Protein family/group databases

REBASEi 980. EcoKI.
TCDBi 3.A.17.1.1. the phage t7 injectisome (t7 injectisome) family.

Proteomic databases

PaxDbi P08956.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC77306 ; AAC77306 ; b4350 .
BAE78340 ; BAE78340 ; BAE78340 .
GeneIDi 12933775.
948878.
KEGGi ecj:Y75_p4235.
eco:b4350.
PATRICi 32124306. VBIEscCol129921_4496.

Organism-specific databases

EchoBASEi EB0454.
EcoGenei EG10459. hsdR.

Phylogenomic databases

eggNOGi COG4096.
HOGENOMi HOG000295053.
InParanoidi P08956.
KOi K01153.
OrthoDBi EOG6MPWQ6.
PhylomeDBi P08956.

Enzyme and pathway databases

BioCyci EcoCyc:EG10459-MONOMER.
ECOL316407:JW4313-MONOMER.
MetaCyc:EG10459-MONOMER.

Miscellaneous databases

PROi P08956.

Gene expression databases

Genevestigatori P08956.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR025285. 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 ]
Pfami 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 ]
SMARTi SM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view ]
SUPFAMi SSF52540. SSF52540. 2 hits.
PROSITEi PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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. 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.

Entry informationi

Entry nameiT1RK_ECOLI
AccessioniPrimary (citable) accession number: P08956
Secondary accession number(s): Q2M5W6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: November 24, 2009
Last modified: October 29, 2014
This is version 140 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. Restriction enzymes and methylases
    Classification of restriction enzymes and methylases and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3