PDBsum entry 1eri

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protein dna_rna links
Hydrolase/DNA PDB id
Protein chain
261 a.a.
Waters ×61
PDB id:
Name: Hydrolase/DNA
Title: X-ray structure of the DNA-eco ri endonuclease-DNA recognition complex: the recognition network and the integration of recognition and cleavage
Structure: DNA (5'- d( Tp Cp Gp Cp Gp Ap Ap Tp Tp Cp Gp Cp G)-3'). Chain: b. Engineered: yes. Protein (eco ri endonuclease . Chain: a
Source: Synthetic: yes. Escherichia coli. Organism_taxid: 562
Biol. unit: Dimer (from PQS)
2.50Å     R-factor:   0.170     R-free:   0.280
Authors: Y.Kim,J.C.Grable,R.Love,P.J.Greene,J.M.Rosenberg
Key ref: Y.C.Kim et al. (1990). Refinement of Eco RI endonuclease crystal structure: a revised protein chain tracing. Science, 249, 1307-1309. PubMed id: 2399465 DOI: 10.1126/science.2399465
18-May-94     Release date:   07-Feb-95    
Supersedes: 1r1e
Go to PROCHECK summary

Protein chain
Pfam   ArchSchema ?
P00642  (T2E1_ECOLX) -  Type-2 restriction enzyme EcoRI
277 a.a.
261 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.  - Type Ii site-specific deoxyribonuclease.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates.
      Cofactor: Magnesium
 Gene Ontology (GO) functional annotation 
  GO annot!
  Biological process     nucleic acid phosphodiester bond hydrolysis   3 terms 
  Biochemical function     hydrolase activity     7 terms  


DOI no: 10.1126/science.2399465 Science 249:1307-1309 (1990)
PubMed id: 2399465  
Refinement of Eco RI endonuclease crystal structure: a revised protein chain tracing.
Y.C.Kim, J.C.Grable, R.Love, P.J.Greene, J.M.Rosenberg.
No abstract given.


Literature references that cite this PDB file's key reference

  PubMed id Reference
20833632 E.S.Vanamee, H.Viadiu, S.H.Chan, A.Ummat, A.M.Hartline, S.Y.Xu, and A.K.Aggarwal (2011).
Asymmetric DNA recognition by the OkrAI endonuclease, an isoschizomer of BamHI.
  Nucleic Acids Res, 39, 712-719.
PDB code: 3odh
  20201599 M.Hedglin, and P.J.O'Brien (2010).
Hopping enables a DNA repair glycosylase to search both strands and bypass a bound protein.
  ACS Chem Biol, 5, 427-436.  
20334529 R.Rohs, X.Jin, S.M.West, R.Joshi, B.Honig, and R.S.Mann (2010).
Origins of specificity in protein-DNA recognition.
  Annu Rev Biochem, 79, 233-269.  
20562221 T.D.Schneider (2010).
70% efficiency of bistate molecular machines explained by information theory, high dimensional geometry and evolutionary convergence.
  Nucleic Acids Res, 38, 5995-6006.  
20587501 T.Raskó, A.Dér, E.Klement, K.Slaska-Kiss, E.Pósfai, K.F.Medzihradszky, D.R.Marshak, R.J.Roberts, and A.Kiss (2010).
BspRI restriction endonuclease: cloning, expression in Escherichia coli and sequential cleavage mechanism.
  Nucleic Acids Res, 38, 7155-7166.  
19533711 D.D.Young, J.M.Govan, M.O.Lively, and A.Deiters (2009).
Photochemical regulation of restriction endonuclease activity.
  Chembiochem, 10, 1612-1616.  
19177345 D.E.Tronrud, and B.W.Matthews (2009).
Sorting the chaff from the wheat at the PDB.
  Protein Sci, 18, 2-5.  
18997032 J.Nakonieczna, T.Kaczorowski, A.Obarska-Kosinska, and J.M.Bujnicki (2009).
Functional analysis of MmeI from methanol utilizer Methylophilus methylotrophus, a subtype IIC restriction-modification enzyme related to type I enzymes.
  Appl Environ Microbiol, 75, 212-223.  
19244617 J.W.Locasale, A.A.Napoli, S.Chen, H.M.Berman, and C.L.Lawson (2009).
Signatures of protein-DNA recognition in free DNA binding sites.
  J Mol Biol, 386, 1054-1065.
PDB codes: 1hq7 2b1b 2b1c 2b1d
19908852 R.Dylla-Spears, J.E.Townsend, L.L.Sohn, L.Jen-Jacobson, and S.J.Muller (2009).
Fluorescent marker for direct detection of specific dsDNA sequences.
  Anal Chem, 81, 10049-10054.  
19166330 T.R.Kahn, K.K.Fong, B.Jordan, J.C.Lek, R.Levitan, P.S.Mitchell, C.Wood, and M.E.Hatcher (2009).
An FTIR investigation of flanking sequence effects on the structure and flexibility of DNA binding sites.
  Biochemistry, 48, 1315-1321.  
18456708 J.Orlowski, and J.M.Bujnicki (2008).
Structural and evolutionary classification of Type II restriction enzymes based on theoretical and experimental analyses.
  Nucleic Acids Res, 36, 3552-3569.  
  19021169 K.M.Stone, J.E.Townsend, J.Sarver, P.J.Sapienza, S.Saxena, and L.Jen-Jacobson (2008).
Electron spin resonance shows common structural features for different classes of EcoRI-DNA complexes.
  Angew Chem Int Ed Engl, 47, 10192-10194.  
18037899 A.J.Ruthenburg, H.Li, D.J.Patel, and C.D.Allis (2007).
Multivalent engagement of chromatin modifications by linked binding modules.
  Nat Rev Mol Cell Biol, 8, 983-994.  
17453346 F.Reza, P.Zuo, and J.Tian (2007).
Protein interfacial pocket engineering via coupled computational filtering and biological focusing criterion.
  Ann Biomed Eng, 35, 1026-1036.  
16868081 G.J.Gemmen, R.Millin, and D.E.Smith (2006).
Tension-dependent DNA cleavage by restriction endonucleases: two-site enzymes are "switched off" at low force.
  Proc Natl Acad Sci U S A, 103, 11555-11560.  
16710870 K.D.Roberts, J.N.Lambert, N.J.Ede, and A.M.Bray (2006).
Efficient methodology for the cyclization of linear peptide libraries via intramolecular S-alkylation using Multipin solid phase peptide synthesis.
  J Pept Sci, 12, 525-532.  
16481311 S.L.Williams, L.K.Parkhurst, and L.J.Parkhurst (2006).
Changes in DNA bending and flexing due to tethered cations detected by fluorescence resonance energy transfer.
  Nucleic Acids Res, 34, 1028-1035.  
16600865 W.Yang, J.Y.Lee, and M.Nowotny (2006).
Making and breaking nucleic acids: two-Mg2+-ion catalysis and substrate specificity.
  Mol Cell, 22, 5.  
16308566 E.S.Vanamee, H.Viadiu, R.Kucera, L.Dorner, S.Picone, I.Schildkraut, and A.K.Aggarwal (2005).
A view of consecutive binding events from structures of tetrameric endonuclease SfiI bound to DNA.
  EMBO J, 24, 4198-4208.
PDB codes: 2ezv 2f03
16209953 J.Y.Lee, J.Chang, N.Joseph, R.Ghirlando, D.N.Rao, and W.Yang (2005).
MutH complexed with hemi- and unmethylated DNAs: coupling base recognition and DNA cleavage.
  Mol Cell, 20, 155-166.
PDB codes: 2aoq 2aor
16195548 Q.S.Xu, R.J.Roberts, and H.C.Guo (2005).
Two crystal forms of the restriction enzyme MspI-DNA complex show the same novel structure.
  Protein Sci, 14, 2590-2600.
PDB code: 1yfi
15893669 S.A.Townson, J.C.Samuelson, S.Y.Xu, and A.K.Aggarwal (2005).
Implications for switching restriction enzyme specificities from the structure of BstYI bound to a BglII DNA sequence.
  Structure, 13, 791-801.
PDB codes: 1vrr 1yuv
15805123 Z.Yang, J.R.Horton, R.Maunus, G.G.Wilson, R.J.Roberts, and X.Cheng (2005).
Structure of HinP1I endonuclease reveals a striking similarity to the monomeric restriction enzyme MspI.
  Nucleic Acids Res, 33, 1892-1901.
PDB code: 1ynm
15454451 N.Y.Sidorova, and D.C.Rau (2004).
Differences between EcoRI nonspecific and "star" sequence complexes revealed by osmotic stress.
  Biophys J, 87, 2564-2576.  
15551873 P.Fritsche, and J.Alves (2004).
A monomeric mutant of restriction endonuclease EcoRI nicks DNA without sequence specificity.
  Biol Chem, 385, 975-985.  
14661976 I.Goldhaber-Gordon, M.H.Early, and T.A.Baker (2003).
MuA transposase separates DNA sequence recognition from catalysis.
  Biochemistry, 42, 14633-14642.  
12086674 J.S.Park, M.T.Marr, and J.W.Roberts (2002).
E. coli Transcription repair coupling factor (Mfd protein) rescues arrested complexes by promoting forward translocation.
  Cell, 109, 757-767.  
12142452 M.Fuxreiter, and I.Simon (2002).
Protein stability indicates divergent evolution of PD-(D/E)XK type II restriction endonucleases.
  Protein Sci, 11, 1978-1983.  
11842098 S.Grazulis, M.Deibert, R.Rimseliene, R.Skirgaila, G.Sasnauskas, A.Lagunavicius, V.Repin, C.Urbanke, R.Huber, and V.Siksnys (2002).
Crystal structure of the Bse634I restriction endonuclease: comparison of two enzymes recognizing the same DNA sequence.
  Nucleic Acids Res, 30, 876-885.
PDB code: 1knv
11861910 Z.Morávek, S.Neidle, and B.Schneider (2002).
Protein and drug interactions in the minor groove of DNA.
  Nucleic Acids Res, 30, 1182-1191.  
11557805 A.Pingoud, and A.Jeltsch (2001).
Structure and function of type II restriction endonucleases.
  Nucleic Acids Res, 29, 3705-3727.  
11148032 C.M.Dupureur, and M.A.Dominguez (2001).
The PD...(D/E)XK motif in restriction enzymes: a link between function and conformation.
  Biochemistry, 40, 387-394.  
11179886 C.M.Lukacs, and A.K.Aggarwal (2001).
BglII and MunI: what a difference a base makes.
  Curr Opin Struct Biol, 11, 14-18.  
11170385 H.Watrob, W.Liu, Y.Chen, S.G.Bartlett, L.Jen-Jacobson, and M.D.Barkley (2001).
Solution conformation of EcoRI restriction endonuclease changes upon binding of cognate DNA and Mg2+ cofactor.
  Biochemistry, 40, 683-692.  
11250198 M.J.van der Woerd, J.J.Pelletier, S.Xu, and A.M.Friedman (2001).
Restriction enzyme BsoBI-DNA complex: a tunnel for recognition of degenerate DNA sequences and potential histidine catalysis.
  Structure, 9, 133-144.
PDB code: 1dc1
11327870 S.L.Reid, D.Parry, H.H.Liu, and B.A.Connolly (2001).
Binding and recognition of GATATC target sequences by the EcoRV restriction endonuclease: a study using fluorescent oligonucleotides and fluorescence polarization.
  Biochemistry, 40, 2484-2494.  
10911996 A.B.Hickman, Y.Li, S.V.Mathew, E.W.May, N.L.Craig, and F.Dyda (2000).
Unexpected structural diversity in DNA recombination: the restriction endonuclease connection.
  Mol Cell, 5, 1025-1034.
PDB code: 1f1z
11112526 D.L.Wong, and N.O.Reich (2000).
Identification of tyrosine 204 as the photo-cross-linking site in the DNA-EcoRI DNA methyltransferase complex by electrospray ionization mass spectrometry.
  Biochemistry, 39, 15410-15417.  
10666447 E.A.Kubareva, H.Thole, A.S.Karyagina, T.S.Oretskaya, A.Pingoud, and V.Pingoud (2000).
Identification of a base-specific contact between the restriction endonuclease SsoII and its recognition sequence by photocross-linking.
  Nucleic Acids Res, 28, 1085-1091.  
10715131 J.J.Hlavaty, J.S.Benner, L.J.Hornstra, and I.Schildkraut (2000).
Identification of the metal-binding sites of restriction endonucleases by Fe2+-mediated oxidative cleavage.
  Biochemistry, 39, 3097-3105.  
10982859 L.Aravind, K.S.Makarova, and E.V.Koonin (2000).
SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories.
  Nucleic Acids Res, 28, 3417-3432.  
10931930 M.R.Rice, and R.M.Blumenthal (2000).
Recognition of native DNA methylation by the PvuII restriction endonuclease.
  Nucleic Acids Res, 28, 3143-3150.  
  11104519 N.M.Luscombe, S.E.Austin, H.M.Berman, and J.M.Thornton (2000).
An overview of the structures of protein-DNA complexes.
  Genome Biol, 1, REVIEWS001.  
10856254 Q.Huai, J.D.Colandene, Y.Chen, F.Luo, Y.Zhao, M.D.Topal, and H.Ke (2000).
Crystal structure of NaeI-an evolutionary bridge between DNA endonuclease and topoisomerase.
  EMBO J, 19, 3110-3118.
PDB code: 1ev7
11092936 T.J.O'Loughlin, Q.Xu, R.B.Kucera, L.F.Dorner, S.Sweeney, I.Schildkraut, and H.C.Guo (2000).
Crystallization and preliminary X-ray diffraction analysis of MspI restriction endonuclease in complex with its cognate DNA.
  Acta Crystallogr D Biol Crystallogr, 56, 1652-1655.  
10103058 C.M.Dupureur, and L.M.Hallman (1999).
Effects of divalent metal ions on the activity and conformation of native and 3-fluorotyrosine-PvuII endonucleases.
  Eur J Biochem, 261, 261-268.  
10508668 R.A.Kovall, and B.W.Matthews (1999).
Type II restriction endonucleases: structural, functional and evolutionary relationships.
  Curr Opin Chem Biol, 3, 578-583.  
10360178 S.E.Tsutakawa, T.Muto, T.Kawate, H.Jingami, N.Kunishima, M.Ariyoshi, D.Kohda, M.Nakagawa, and K.Morikawa (1999).
Crystallographic and functional studies of very short patch repair endonuclease.
  Mol Cell, 3, 621-628.
PDB code: 1vsr
10512803 S.Sen, and L.Nilsson (1999).
Structure, interaction, dynamics and solvent effects on the DNA-EcoRI complex in aqueous solution from molecular dynamics simulation.
  Biophys J, 77, 1782-1800.  
10512804 S.Sen, and L.Nilsson (1999).
Free energy calculations and molecular dynamics simulations of wild-type and variants of the DNA-EcoRI complex.
  Biophys J, 77, 1801-1810.  
10586498 T.Dahai, S.Ando, Y.Takasaki, and J.Tadano (1999).
Site-directed mutagenesis of restriction endonuclease HindIII.
  Biosci Biotechnol Biochem, 63, 1703-1707.  
17029732 A.Jeltsch (1998).
Flexibility of DNA in complex with proteins deduced from the distribution of bending angles observed by scanning force microscopy.
  Biophys Chem, 74, 53-57.  
9482749 C.Ban, and W.Yang (1998).
Structural basis for MutH activation in E.coli mismatch repair and relationship of MutH to restriction endonucleases.
  EMBO J, 17, 1526-1534.
PDB codes: 1azo 2azo
9482860 C.R.Robinson, and S.G.Sligar (1998).
Changes in solvation during DNA binding and cleavage are critical to altered specificity of the EcoRI endonuclease.
  Proc Natl Acad Sci U S A, 95, 2186-2191.  
9485369 C.Wenz, M.Hahn, and A.Pingoud (1998).
Engineering of variants of the restriction endonuclease EcoRV that depend in their cleavage activity on the flexibility of sequences flanking the recognition site.
  Biochemistry, 37, 2234-2242.  
9783752 H.Viadiu, and A.K.Aggarwal (1998).
The role of metals in catalysis by the restriction endonuclease BamHI.
  Nat Struct Biol, 5, 910-916.
PDB codes: 2bam 3bam
  9628335 K.F.Lee, P.C.Shaw, S.J.Picone, G.G.Wilson, and K.D.Lunnen (1998).
Sequence comparison of the EcoHK31I and EaeI restriction-modification systems suggests an intergenic transfer of genetic material.
  Biol Chem, 379, 437-441.  
9653552 M.Brickner, and J.Chmielewski (1998).
Inhibiting the dimeric restriction endonuclease EcoRI using interfacial helical peptides.
  Chem Biol, 5, 339-343.  
9653111 R.A.Kovall, and B.W.Matthews (1998).
Structural, functional, and evolutionary relationships between lambda-exonuclease and the type II restriction endonucleases.
  Proc Natl Acad Sci U S A, 95, 7893-7897.  
9759487 R.J.Roberts, and X.Cheng (1998).
Base flipping.
  Annu Rev Biochem, 67, 181-198.  
9799508 W.Liu, Y.Chen, H.Watrob, S.G.Bartlett, L.Jen-Jacobson, and M.D.Barkley (1998).
N-termini of EcoRI restriction endonuclease dimer are in close proximity on the protein surface.
  Biochemistry, 37, 15457-15465.  
9287152 A.Lagunavicius, S.Grazulis, E.Balciunaite, D.Vainius, and V.Siksnys (1997).
DNA binding specificity of MunI restriction endonuclease is controlled by pH and calcium ions: involvement of active site carboxylate residues.
  Biochemistry, 36, 11093-11099.  
9287151 A.Lagunavicius, and V.Siksnys (1997).
Site-directed mutagenesis of putative active site residues of MunI restriction endonuclease: replacement of catalytically essential carboxylate residues triggers DNA binding specificity.
  Biochemistry, 36, 11086-11092.  
9210460 A.Pingoud, and A.Jeltsch (1997).
Recognition and cleavage of DNA by type-II restriction endonucleases.
  Eur J Biochem, 246, 1.  
9298958 D.H.Groll, A.Jeltsch, U.Selent, and A.Pingoud (1997).
Does the restriction endonuclease EcoRV employ a two-metal-Ion mechanism for DNA cleavage?
  Biochemistry, 36, 11389-11401.  
9358163 D.Meierhans, M.Sieber, and R.K.Allemann (1997).
High affinity binding of MEF-2C correlates with DNA bending.
  Nucleic Acids Res, 25, 4537-4544.  
9782777 D.Suck (1997).
DNA recognition by structure-selective nucleases.
  Biopolymers, 44, 405-421.  
  9070437 J.Osuna, X.Soberón, and E.Morett (1997).
A proposed architecture for the central domain of the bacterial enhancer-binding proteins based on secondary structure prediction and fold recognition.
  Protein Sci, 6, 543-555.  
9108149 P.H.Thorpe, D.Ternent, and N.E.Murray (1997).
The specificity of sty SKI, a type I restriction enzyme, implies a structure with rotational symmetry.
  Nucleic Acids Res, 25, 1694-1700.  
9187655 P.J.Heath, K.M.Stephens, R.J.Monnat, and B.L.Stoddard (1997).
The structure of I-Crel, a group I intron-encoded homing endonuclease.
  Nat Struct Biol, 4, 468-476.
PDB code: 1af5
9782776 R.E.Dickerson, and T.K.Chiu (1997).
Helix bending as a factor in protein/DNA recognition.
  Biopolymers, 44, 361-403.  
9235992 S.Windolph, A.Fritz, T.Oelgeschläger, H.Wolfes, and J.Alves (1997).
Sequence context influencing cleavage activity of the K130E mutant of the restriction endonuclease EcoRI identified by a site selection assay.
  Biochemistry, 36, 9478-9485.  
9063456 S.Windolph, and J.Alves (1997).
Influence of divalent cations on inner-arm mutants of restriction endonuclease EcoRI.
  Eur J Biochem, 244, 134-139.  
  8890184 A.Jeltsch, C.Wenz, F.Stahl, and A.Pingoud (1996).
Linear diffusion of the restriction endonuclease EcoRV on DNA is essential for the in vivo function of the enzyme.
  EMBO J, 15, 5104-5111.  
8942637 B.W.Allan, and N.O.Reich (1996).
Targeted base stacking disruption by the EcoRI DNA methyltransferase.
  Biochemistry, 35, 14757-14762.  
8987994 D.Hüsken, G.Goodall, M.J.Blommers, W.Jahnke, J.Hall, R.Häner, and H.E.Moser (1996).
Creating RNA bulges: cleavage of RNA in RNA/DNA duplexes by metal ion catalysis.
  Biochemistry, 35, 16591-16600.  
8650239 F.Stahl, W.Wende, A.Jeltsch, and A.Pingoud (1996).
Introduction of asymmetry in the naturally symmetric restriction endonuclease EcoRV to investigate intersubunit communication in the homodimeric protein.
  Proc Natl Acad Sci U S A, 93, 6175-6180.  
8917312 H.Ruan, K.D.Lunnen, M.E.Scott, L.S.Moran, B.E.Slatko, J.J.Pelletier, E.J.Hess, J.Benner, G.G.Wilson, and S.Y.Xu (1996).
Cloning and sequence comparison of AvaI and BsoBI restriction-modification systems.
  Mol Gen Genet, 252, 695-699.  
  8654385 L.Jen-Jacobson, L.E.Engler, D.R.Lesser, M.R.Kurpiewski, C.Yee, and B.McVerry (1996).
Structural adaptations in the interaction of EcoRI endonuclease with methylated GAATTC sites.
  EMBO J, 15, 2870-2882.  
  8665862 M.S.Junop, and D.B.Haniford (1996).
Multiple roles for divalent metal ions in DNA transposition: distinct stages of Tn10 transposition have different Mg2+ requirements.
  EMBO J, 15, 2547-2555.  
8755524 R.A.Garcia, C.J.Bustamante, and N.O.Reich (1996).
Sequence-specific recognition of cytosine C5 and adenine N6 DNA methyltransferases requires different deformations of DNA.
  Proc Natl Acad Sci U S A, 93, 7618-7622.  
8718874 S.Cal, R.G.Nicieza, B.A.Connolly, and J.Sánchez (1996).
Interaction of the periplasmic dG-selective Streptomyces antibioticus nuclease with oligodeoxynucleotide substrates.
  Biochemistry, 35, 10828-10836.  
7739896 A.Chen, L.M.Powell, D.T.Dryden, N.E.Murray, and T.Brown (1995).
Tyrosine 27 of the specificity polypeptide of EcoKI can be UV crosslinked to a bromodeoxyuridine-substituted DNA target sequence.
  Nucleic Acids Res, 23, 1177-1183.  
7773740 A.K.Aggarwal (1995).
Structure and function of restriction endonucleases.
  Curr Opin Struct Biol, 5, 11-19.  
7724581 C.R.Robinson, and S.G.Sligar (1995).
Heterogeneity in molecular recognition by restriction endonucleases: osmotic and hydrostatic pressure effects on BamHI, Pvu II, and EcoRV specificity.
  Proc Natl Acad Sci U S A, 92, 3444-3448.  
7647248 M.A.Young, G.Ravishanker, D.L.Beveridge, and H.M.Berman (1995).
Analysis of local helix bending in crystal structures of DNA oligonucleotides and DNA-protein complexes.
  Biophys J, 68, 2454-2468.  
7664066 A.Athanasiadis, M.Vlassi, D.Kotsifaki, P.A.Tucker, K.S.Wilson, and M.Kokkinidis (1994).
Crystal structure of PvuII endonuclease reveals extensive structural homologies to EcoRV.
  Nat Struct Biol, 1, 469-475.
PDB code: 1pvu
7892176 C.Venclovas, A.Timinskas, and V.Siksnys (1994).
Five-stranded beta-sheet sandwiched with two alpha-helices: a structural link between restriction endonucleases EcoRI and EcoRV.
  Proteins, 20, 279-282.  
8081744 F.K.Winkler (1994).
DNA totally flipped-out by methylase.
  Structure, 2, 79-83.  
8302865 J.Liu, M.Sodeoka, W.S.Lane, and G.L.Verdine (1994).
Evidence for a non-alpha-helical DNA-binding motif in the Rel homology region.
  Proc Natl Acad Sci U S A, 91, 908-912.  
8066089 K.Balendiran, J.Bonventre, R.Knott, W.Jack, J.Benner, I.Schildkraut, and J.E.Anderson (1994).
Expression, purification, and crystallization of restriction endonuclease PvuII with DNA containing its recognition site.
  Proteins, 19, 77-79.  
7908739 L.F.Dorner, and I.Schildkraut (1994).
Direct selection of binding proficient/catalytic deficient variants of BamHI endonuclease.
  Nucleic Acids Res, 22, 1068-1074.  
8081758 M.Newman, T.Strzelecka, L.F.Dorner, I.Schildkraut, and A.K.Aggarwal (1994).
Structure of restriction endonuclease bamhi phased at 1.95 A resolution by MAD analysis.
  Structure, 2, 439-452.
PDB code: 1bam
8087558 M.Suzuki (1994).
A framework for the DNA-protein recognition code of the probe helix in transcription factors: the chemical and stereochemical rules.
  Structure, 2, 317-326.  
8293469 S.Klimasauskas, S.Kumar, R.J.Roberts, and X.Cheng (1994).
HhaI methyltransferase flips its target base out of the DNA helix.
  Cell, 76, 357-369.
PDB code: 1mht
  8076590 X.Cheng, K.Balendiran, I.Schildkraut, and J.E.Anderson (1994).
Structure of PvuII endonuclease with cognate DNA.
  EMBO J, 13, 3927-3935.
PDB code: 1pvi
8378323 A.Jeltsch, J.Alves, H.Wolfes, G.Maass, and A.Pingoud (1993).
Substrate-assisted catalysis in the cleavage of DNA by the EcoRI and EcoRV restriction enzymes.
  Proc Natl Acad Sci U S A, 90, 8499-8503.  
8332454 B.E.Withers, and J.C.Dunbar (1993).
The endonuclease isoschizomers, SmaI and XmaI, bend DNA in opposite orientations.
  Nucleic Acids Res, 21, 2571-2577.  
  8401235 C.Colovos, and T.O.Yeates (1993).
Verification of protein structures: patterns of nonbonded atomic interactions.
  Protein Sci, 2, 1511-1519.  
8356054 D.R.Lesser, M.R.Kurpiewski, T.Waters, B.A.Connolly, and L.Jen-Jacobson (1993).
Facilitated distortion of the DNA site enhances EcoRI endonuclease-DNA recognition.
  Proc Natl Acad Sci U S A, 90, 7548-7552.  
  8491171 F.K.Winkler, D.W.Banner, C.Oefner, D.Tsernoglou, R.S.Brown, S.P.Heathman, R.K.Bryan, P.D.Martin, K.Petratos, and K.S.Wilson (1993).
The crystal structure of EcoRV endonuclease and of its complexes with cognate and non-cognate DNA fragments.
  EMBO J, 12, 1781-1795.
PDB codes: 1rve 2rve 4rve
8223580 V.Siksnys, and M.Pleckaityte (1993).
Catalytic and binding properties of restriction endonuclease Cfr9I.
  Eur J Biochem, 217, 411-419.  
1618296 A.Jeltsch, J.Alves, G.Maass, and A.Pingoud (1992).
On the catalytic mechanism of EcoRI and EcoRV. A detailed proposal based on biochemical results, structural data and molecular modelling.
  FEBS Lett, 304, 4-8.  
1461739 D.W.Smith, S.W.Crowder, and N.O.Reich (1992).
In vivo specificity of EcoRI DNA methyltransferase.
  Nucleic Acids Res, 20, 6091-6096.  
1551592 F.Barany, and J.Zebala (1992).
Correlation between insertion mutant activities and amino acid sequence identities of the TaqI and TthHB8 restriction endonucleases.
  Gene, 112, 13-20.  
1445286 J.Heitman (1992).
How the EcoRI endonuclease recognizes and cleaves DNA.
  Bioessays, 14, 445-454.  
1584778 L.Zhong, and W.C.Johnson (1992).
Environment affects amino acid preference for secondary structure.
  Proc Natl Acad Sci U S A, 89, 4462-4465.  
  1907265 S.Y.Xu, and I.Schildkraut (1991).
Cofactor requirements of BamHI mutant endonuclease E77K and its suppressor mutants.
  J Bacteriol, 173, 5030-5035.  
2030964 W.E.Jack, L.Greenough, L.F.Dorner, S.Y.Xu, T.Strzelecka, A.K.Aggarwal, and I.Schildkraut (1991).
Overexpression, purification and crystallization of BamHI endonuclease.
  Nucleic Acids Res, 19, 1825-1829.  
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